aboutsummaryrefslogtreecommitdiff
diff options
context:
space:
mode:
authorSergey A. Osokin <osa@FreeBSD.org>2003-10-22 09:37:18 +0000
committerSergey A. Osokin <osa@FreeBSD.org>2003-10-22 09:37:18 +0000
commit958842c5c62d613041843fb197e43834d0e6e7f9 (patch)
tree4bddc4d898e1efa8097beab8575712b76311564d
parent19658c02f0c63fc4b676af4a3e61f26d74b1c768 (diff)
downloadports-958842c5c62d613041843fb197e43834d0e6e7f9.tar.gz
ports-958842c5c62d613041843fb197e43834d0e6e7f9.zip
Notes
-rw-r--r--biology/babel/pkg-plist4
-rw-r--r--biology/biojava/pkg-plist1044
-rw-r--r--biology/coalesce/pkg-plist6
-rw-r--r--biology/crimap/pkg-plist4
-rw-r--r--biology/dna-qc/pkg-plist24
-rw-r--r--biology/fasta/pkg-plist26
-rw-r--r--biology/fasta3/pkg-plist40
-rw-r--r--biology/fastdnaml/pkg-plist6
-rw-r--r--biology/fluctuate/pkg-plist6
-rw-r--r--biology/garlic/pkg-plist536
-rw-r--r--biology/gff2ps/pkg-plist4
-rw-r--r--biology/hmmer/pkg-plist10
-rw-r--r--biology/migrate/pkg-plist20
-rw-r--r--biology/molden/pkg-plist8
-rw-r--r--biology/mopac/pkg-plist6
-rw-r--r--biology/nab/pkg-plist4
-rw-r--r--biology/ncbi-toolkit/pkg-plist102
-rw-r--r--biology/ortep3/pkg-plist146
-rw-r--r--biology/paml/pkg-plist4
-rw-r--r--biology/phylip/pkg-plist86
-rw-r--r--biology/platon/pkg-plist176
-rw-r--r--biology/primer3/pkg-plist6
-rw-r--r--biology/psi88/pkg-plist38
-rw-r--r--biology/py-biopython/pkg-plist52
-rw-r--r--biology/recombine/pkg-plist6
-rw-r--r--biology/seqio/pkg-plist52
-rw-r--r--biology/tRNAscan-SE/pkg-plist4
-rw-r--r--biology/t_coffee/pkg-plist14
-rw-r--r--biology/tinker/pkg-plist42
-rw-r--r--biology/wise/pkg-plist24
-rw-r--r--biology/xmolwt/pkg-plist18
-rw-r--r--cad/atlc/pkg-plist250
-rw-r--r--cad/cascade/pkg-plist6
-rw-r--r--cad/gtkwave/pkg-plist52
-rw-r--r--cad/mars/pkg-plist14
-rw-r--r--cad/pcb/pkg-plist10
-rw-r--r--cad/sceptre/pkg-plist6
-rw-r--r--comms/gfax/pkg-plist14
-rw-r--r--comms/gkermit/pkg-plist4
-rw-r--r--comms/gnokii/pkg-plist98
-rw-r--r--comms/ltmdm/pkg-plist10
-rw-r--r--comms/mserver/pkg-plist6
-rw-r--r--comms/p5-Device-Modem/pkg-plist4
-rw-r--r--comms/pr/pkg-plist4
-rw-r--r--comms/qico/pkg-plist6
-rw-r--r--comms/qicosi/pkg-plist6
-rw-r--r--comms/snooper/pkg-plist4
-rw-r--r--comms/sredird/pkg-plist6
-rw-r--r--comms/yaps/pkg-plist6
-rw-r--r--comms/yawmppp/pkg-plist10
-rw-r--r--converters/chmview/pkg-plist4
-rw-r--r--converters/enca/pkg-plist18
-rw-r--r--converters/mule-ucs/pkg-plist16
-rw-r--r--converters/utf8conv/pkg-plist4
-rw-r--r--converters/uudeview/pkg-plist6
-rw-r--r--converters/uulib/pkg-plist26
-rw-r--r--converters/xdeview/pkg-plist4
57 files changed, 1556 insertions, 1556 deletions
diff --git a/biology/babel/pkg-plist b/biology/babel/pkg-plist
index e781099ee265..db3c75dc289d 100644
--- a/biology/babel/pkg-plist
+++ b/biology/babel/pkg-plist
@@ -5,6 +5,6 @@ share/babel/element.lis
share/babel/new.lis
share/babel/quanta.lis
share/babel/types.lis
-%%PORTDOCS%%share/doc/babel/README.1ST
-%%PORTDOCS%%@dirrm share/doc/babel
+%%PORTDOCS%%%%DOCSDIR%%/README.1ST
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
@dirrm share/babel
diff --git a/biology/biojava/pkg-plist b/biology/biojava/pkg-plist
index eb5b8d79dadf..1daa6eec24aa 100644
--- a/biology/biojava/pkg-plist
+++ b/biology/biojava/pkg-plist
@@ -50,495 +50,495 @@ share/java/biojava-1.01/demos/symbol/TestWindowedSymbolList.java
share/java/biojava-1.01/demos/seqviewer/test.fa
share/java/biojava-1.01/demos/seqviewer/EmblViewer.java
share/java/biojava-1.01/demos/seqviewer/TestSequencePanel.java
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/UnknownHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_Unknown_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/Unknown.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_Unknown_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_UnknownImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_UnknownStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/UnknownHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/SocketDriver.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/SocketResultSet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticStringValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticAceNode.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticAceObject.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticAceSet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticDateValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticFloatValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticIntValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelInclude.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelNode.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelReference.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelType.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticReference.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/AceAnnotation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/AceSequence.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/AceSequenceDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceElement.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceNode.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceObject.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceSet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Connection.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Database.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/DateValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Driver.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/FloatValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/IntValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelInclude.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelNode.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelReference.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelType.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Reference.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/StringValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Ace.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AcePerlParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceURL.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceUtils.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Handler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceURLException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceError.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/UnableToProcess.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeq_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeq_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDB_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_Seq_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDB_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeature_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Operations.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/AnonymousSeq.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeq.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqIterator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/Seq.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeature.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureIterator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeq_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeqImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeqStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeq_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDB_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDBImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDBStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIteratorImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIteratorStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_Seq_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDB_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDBImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDBStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeature_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Tie.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIteratorImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIteratorStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqImplBase.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqStub.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/AnonymousSeqHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/AnonymousSeqHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/EndOfStreamHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/EndOfStreamHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetListHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetListHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/OutOfRangeHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/OutOfRangeHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/primaryidListHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/primaryidListHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqDBHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqDBHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqIteratorHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqIteratorHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/RequestTooLargeHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/RequestTooLargeHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqDBHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqDBHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureIteratorHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureIteratorHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureListHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureListHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqType.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqTypeHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqTypeHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/stringListHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/stringListHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/UnableToProcessHelper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/UnableToProcessHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/EndOfStream.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/OutOfRange.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/RequestTooLarge.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/IgnoreRecordException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFDocumentHandler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecord.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFEntrySet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.AbortErrorHandler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.SkipRecordErrorHandler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFFilterer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.AcceptAll.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.FeatureFilter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.SequenceFilter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.SourceFilter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFWriter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/SequencesAsGFF.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/SimpleGFFRecord.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/Meme.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelVetoException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DotState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DPMatrix.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/EmissionState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/MarkovModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelInState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/State.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/StatePath.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/StoppingCriteria.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/Trainable.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TrainingAlgorithm.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TransitionListener.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TransitionTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/WeightMatrix.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DP.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/AbstractTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/BaumWelchSampler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/BaumWelchTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DP.ReverseIterator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DPFactory.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/MagicalState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelChangeEvent.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelView.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelView.ViewTransitionTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/PairDPMatrix.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/PairwiseDP.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ProfileHMM.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleDotState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleEmissionState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleMarkovModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleModelInState.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/Transition.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleModelTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleStatePath.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleTransitionTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleWeightMatrix.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TrainerTransition.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TransitionEvent.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/WeightMatrixAnnotator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/WMAsMM.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/XmlMarkovModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/IllegalTransitionException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/SymbolSequenceRenderer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/FeatureRenderer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/SequenceRenderer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/BasicFeatureRenderer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/FeatureBlockSequenceRenderer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/LogoPainter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SymbolStyle.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/BarLogoPainter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/DistributionLogo.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/DNAStyle.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/PlainStyle.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SequencePanel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SequencePanel.Border.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SimpleSymbolStyle.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/TextLogoPainter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/UniformDistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/Distribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionFactory.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionTrainerContext.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/AbstractDistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/ComplementaryDistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionFactory.DefaultDistributionFactory.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DNADistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/GapDistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/IgnoreCountsTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/PairDistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/SimpleDistribution.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/SimpleDistributionTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/SimpleDistributionTrainerContext.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchSubHit.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearcher.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearchHit.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearchResult.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearchSubHit.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchHit.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchResult.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/SimpleSequenceDBInstallation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IDMaker.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/SequenceDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/SequenceDBInstallation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/AnnotatedSequenceDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/CachingSequenceDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/HashSequenceDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IDMaker.ByName.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IDMaker.ByURN.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IndexedSequenceDB.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/StreamWriter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/AlignmentFormat.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/FastaDescriptionReader.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/FeatureBuilder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/SequenceFormat.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/DefaultDescriptionReader.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/EmblFormat.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/FastaFormat.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/GenbankFormat.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/SimpleFeatureBuilder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/StreamReader.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/StreamReader.Context.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/Feature.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureRealizer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/RealizingFeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/Sequence.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SequenceAnnotator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SequenceFactory.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SequenceIterator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/StrandedFeature.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/AbstractFeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/DNATools.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/Feature.Template.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.AcceptAllFilter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.And.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.BySource.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.ByType.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.ContainedByLocation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.Not.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.Or.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.OverlapsLocation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureHolder.EmptyFeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/GeneticCode.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/MergeFeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/ProteinTools.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleFeatureHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleFeatureRealizer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleSequence.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleSequenceFactory.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/StrandedFeature.Strand.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/StrandedFeature.Template.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/ViewSequence.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IllegalSymbolException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Alignment.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Alphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AtomicSymbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CrossProductAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CrossProductSymbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/FiniteAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Location.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Symbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SymbolParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/TranslationTable.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AbstractAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AbstractSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AllTokensAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Alphabet.EmptyAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AlphabetManager.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AlphabetManager.ListWrapper.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CompoundLocation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CrossProductSymbolNameParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/DoubleAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/DoubleAlphabet.DoubleSymbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/FixedWidthParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/GappedSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IntegerAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IntegerAlphabet.IntegerSymbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Location.EmptyLocation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Location.LocationComparator.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/NameParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/OrderNSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/PointLocation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/RangeLocation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/ReverseSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleAlignment.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleAtomicSymbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleSymbol.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleTranslationTable.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SingletonAlphabet.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SuffixTree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SuffixTree.SuffixNode.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SymbolList.EmptySymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/TokenParser.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/TranslatedSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/WindowedSymbolList.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IllegalAlphabetException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/SimpleAnnotation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/BioException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/BioError.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/Annotatable.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/Annotation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/Annotation.EmptyAnnotation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/OverlayAnnotation.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SymbolListAdapter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/AnonymousSeqImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/FeatureAdapter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqDBImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqIteratorImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqDBImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureIteratorImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceAdapter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceDBAdapter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceIteratorAdapter.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/UnknownImpl.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/TrainRegression.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.DepthScaler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/ClassifierExample.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/ClassifierExample.PointClassifier.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/Classify.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.MultipleScalar.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.NullModelScaler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.SelectionScalar.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.UniformScaler.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SVM_Light.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SVM_Light.LabelledVector.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/Train.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/ItemValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMClassifierModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMTarget.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/TrainingContext.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/TrainingListener.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/AbstractSVMClassifierModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/AbstractSVMTarget.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/CachingKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/DiagonalAddKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/DiagonalCachingKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/LinearKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/ListSumKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SMOTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/NestedKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/NormalizingKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/PolynomialKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/RadialBaseKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SigmoidKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SimpleItemValue.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SimpleSVMClassifierModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SimpleSVMTarget.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SMORegressionTrainer.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SparseVector.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SparseVector.NormalizingKernel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMRegressionModel.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/TrainingEvent.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/Contract.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/AssertionFailedException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/PostconditionNotMetException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/PreconditionNotMetException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/XMLPeerFactory.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/XMLDispatcher.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/XMLPeerBuilder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/package-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/ObjectUtil.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/StaticMemberPlaceHolder.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/TypedProperties.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/package-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/ParserException.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/package-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/deprecated-list.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/allclasses-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/index.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/packages.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/overview-summary.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/overview-frame.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/serialized-form.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/package-list
-%%PORTDOCS%%share/doc/biojava-1.01/api/help-doc.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/overview-tree.html
-%%PORTDOCS%%share/doc/biojava-1.01/api/stylesheet.css
-%%PORTDOCS%%share/doc/biojava-1.01/api/index-all.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/UnknownHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/_Unknown_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/Unknown.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/_Unknown_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/_UnknownImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/_UnknownStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/UnknownHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/GNOME/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/socket/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/socket/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/socket/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/socket/SocketDriver.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/socket/SocketResultSet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticStringValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticAceNode.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticAceObject.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticAceSet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticDateValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticFloatValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticIntValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticModelInclude.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticModelNode.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticModelReference.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticModelType.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/StaticReference.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/staticobj/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/seq/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/seq/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/seq/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/seq/AceAnnotation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/seq/AceSequence.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/seq/AceSequenceDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceElement.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceNode.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceObject.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceSet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/Connection.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/Database.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/DateValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/Driver.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/FloatValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/IntValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/ModelInclude.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/ModelNode.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/ModelReference.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/ModelType.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/Reference.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/StringValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/Ace.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AcePerlParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceURL.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceUtils.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/Handler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceURLException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/AceError.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/acedb/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/UnableToProcess.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_AnonymousSeq_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeq_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDB_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_Seq_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqDB_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeature_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Operations.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/AnonymousSeq.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeq.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqIterator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/Seq.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeature.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureIterator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_AnonymousSeq_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_AnonymousSeqImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_AnonymousSeqStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeq_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDB_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDBImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDBStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIteratorImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIteratorStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_Seq_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqDB_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqDBImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqDBStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeature_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeatureImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Tie.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIteratorImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIteratorStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqFeatureStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqImplBase.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/_SeqStub.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/AnonymousSeqHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/AnonymousSeqHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/EndOfStreamHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/EndOfStreamHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/NameValueSet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/NameValueSetHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/NameValueSetHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/NameValueSetListHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/NameValueSetListHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/OutOfRangeHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/OutOfRangeHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/primaryidListHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/primaryidListHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqDBHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqDBHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqIteratorHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/PrimarySeqIteratorHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/RequestTooLargeHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/RequestTooLargeHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqDBHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqDBHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureIteratorHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureIteratorHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureListHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqFeatureListHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqType.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqTypeHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/SeqTypeHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/stringListHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/stringListHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/UnableToProcessHelper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/UnableToProcessHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/EndOfStream.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/OutOfRange.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/RequestTooLarge.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/IgnoreRecordException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFDocumentHandler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFRecord.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFEntrySet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.AbortErrorHandler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.SkipRecordErrorHandler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFFilterer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.AcceptAll.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.FeatureFilter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.SequenceFilter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.SourceFilter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/GFFWriter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/SequencesAsGFF.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/SimpleGFFRecord.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/program/Meme.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ModelVetoException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/DotState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/DPMatrix.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/EmissionState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/MarkovModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ModelInState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ModelTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/State.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/StatePath.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/StoppingCriteria.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/Trainable.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/TrainingAlgorithm.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/TransitionListener.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/TransitionTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/WeightMatrix.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/DP.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/AbstractTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/BaumWelchSampler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/BaumWelchTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/DP.ReverseIterator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/DPFactory.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/MagicalState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ModelChangeEvent.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ModelView.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ModelView.ViewTransitionTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/PairDPMatrix.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/PairwiseDP.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/ProfileHMM.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleDotState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleEmissionState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleMarkovModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleModelInState.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/Transition.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleModelTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleStatePath.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleTransitionTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/SimpleWeightMatrix.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/TrainerTransition.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/TransitionEvent.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/WeightMatrixAnnotator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/WMAsMM.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/XmlMarkovModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/IllegalTransitionException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dp/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/SymbolSequenceRenderer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/FeatureRenderer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/SequenceRenderer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/BasicFeatureRenderer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/FeatureBlockSequenceRenderer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/LogoPainter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/SymbolStyle.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/BarLogoPainter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/DistributionLogo.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/DNAStyle.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/PlainStyle.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/SequencePanel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/SequencePanel.Border.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/SimpleSymbolStyle.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/gui/TextLogoPainter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/UniformDistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/Distribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/DistributionFactory.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/DistributionTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/DistributionTrainerContext.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/AbstractDistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/ComplementaryDistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/DistributionFactory.DefaultDistributionFactory.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/DNADistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/GapDistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/IgnoreCountsTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/PairDistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/SimpleDistribution.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/SimpleDistributionTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/SimpleDistributionTrainerContext.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/dist/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchSubHit.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SeqSimilaritySearcher.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SeqSimilaritySearchHit.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SeqSimilaritySearchResult.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SeqSimilaritySearchSubHit.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchHit.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchResult.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/search/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/SimpleSequenceDBInstallation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/IDMaker.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/SequenceDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/SequenceDBInstallation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/AnnotatedSequenceDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/CachingSequenceDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/HashSequenceDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/IDMaker.ByName.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/IDMaker.ByURN.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/IndexedSequenceDB.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/StreamWriter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/AlignmentFormat.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/FastaDescriptionReader.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/FeatureBuilder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/SequenceFormat.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/DefaultDescriptionReader.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/EmblFormat.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/FastaFormat.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/GenbankFormat.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/SimpleFeatureBuilder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/StreamReader.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/StreamReader.Context.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/Feature.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureRealizer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/RealizingFeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/Sequence.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SequenceAnnotator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SequenceFactory.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SequenceIterator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/StrandedFeature.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/AbstractFeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/DNATools.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/Feature.Template.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.AcceptAllFilter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.And.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.BySource.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.ByType.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.ContainedByLocation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.Not.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.Or.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureFilter.OverlapsLocation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/FeatureHolder.EmptyFeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/GeneticCode.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/MergeFeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/ProteinTools.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SimpleFeatureHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SimpleFeatureRealizer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SimpleSequence.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/SimpleSequenceFactory.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/StrandedFeature.Strand.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/StrandedFeature.Template.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/ViewSequence.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/seq/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/IllegalSymbolException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Alignment.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Alphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/AtomicSymbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/CrossProductAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/CrossProductSymbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/FiniteAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Location.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Symbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SymbolParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/TranslationTable.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/AbstractAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/AbstractSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/AllTokensAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Alphabet.EmptyAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/AlphabetManager.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/AlphabetManager.ListWrapper.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/CompoundLocation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/CrossProductSymbolNameParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/DoubleAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/DoubleAlphabet.DoubleSymbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/FixedWidthParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/GappedSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/IntegerAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/IntegerAlphabet.IntegerSymbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Location.EmptyLocation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/Location.LocationComparator.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/NameParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/OrderNSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/PointLocation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/RangeLocation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/ReverseSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SimpleAlignment.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SimpleAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SimpleAtomicSymbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SimpleSymbol.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SimpleSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SimpleTranslationTable.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SingletonAlphabet.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SuffixTree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SuffixTree.SuffixNode.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/SymbolList.EmptySymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/TokenParser.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/TranslatedSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/WindowedSymbolList.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/IllegalAlphabetException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/symbol/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/SimpleAnnotation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/BioException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/BioError.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/Annotatable.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/Annotation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/Annotation.EmptyAnnotation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bio/OverlayAnnotation.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SymbolListAdapter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/AnonymousSeqImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/FeatureAdapter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqDBImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqIteratorImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqDBImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureIteratorImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceAdapter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceDBAdapter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceIteratorAdapter.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/GNOME/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/GNOME/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/GNOME/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/bridge/GNOME/UnknownImpl.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/TrainRegression.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.DepthScaler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/ClassifierExample.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/ClassifierExample.PointClassifier.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/Classify.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.MultipleScalar.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.NullModelScaler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.SelectionScalar.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.UniformScaler.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SVM_Light.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/SVM_Light.LabelledVector.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/Train.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/ItemValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SVMClassifierModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SVMKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SVMTarget.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/TrainingContext.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/TrainingListener.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/AbstractSVMClassifierModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/AbstractSVMTarget.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/CachingKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/DiagonalAddKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/DiagonalCachingKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/LinearKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/ListSumKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SMOTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/NestedKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/NormalizingKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/PolynomialKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/RadialBaseKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SigmoidKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SimpleItemValue.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SimpleSVMClassifierModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SimpleSVMTarget.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SMORegressionTrainer.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SparseVector.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SparseVector.NormalizingKernel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/SVMRegressionModel.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/stats/svm/TrainingEvent.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/Contract.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/AssertionFailedException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/PostconditionNotMetException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/contract/PreconditionNotMetException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/xml/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/xml/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/xml/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/xml/XMLPeerFactory.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/xml/XMLDispatcher.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/xml/XMLPeerBuilder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/package-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/ObjectUtil.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/StaticMemberPlaceHolder.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/TypedProperties.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/package-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/ParserException.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/org/biojava/utils/package-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/deprecated-list.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/allclasses-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/index.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/packages.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/overview-summary.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/overview-frame.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/serialized-form.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/package-list
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/help-doc.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/overview-tree.html
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/stylesheet.css
+%%PORTDOCS%%%%DOCSDIR%%-1.01/api/index-all.html
@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
@@ -550,36 +550,36 @@ share/java/biojava-1.01/demos/seqviewer/TestSequencePanel.java
@dirrm share/java/biojava-1.01/demos/symbol
@dirrm share/java/biojava-1.01/demos/seqviewer
@dirrm share/java/biojava-1.01/demos
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/GNOME
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb/socket
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb/staticobj
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb/seq
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/Biocorba/Seqcore
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/Biocorba
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/program/gff
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/program
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/dp
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/gui
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/dist
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/search
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/seq/db
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/seq/io
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/seq
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/symbol
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge/GNOME
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/stats/svm/tools
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/stats/svm
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/stats
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/utils/contract
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/utils/xml
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/utils
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api
-%%PORTDOCS%%@dirrm share/doc/biojava-1.01
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/GNOME
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/acedb/socket
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/acedb/staticobj
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/acedb/seq
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/acedb
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/Biocorba/Seqcore
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/Biocorba
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/program/gff
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/program
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/dp
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/gui/sequence
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/gui
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/dist
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/search
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/seq/db
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/seq/io
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/seq
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio/symbol
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bio
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba/Seqcore
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bridge/Biocorba
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bridge/GNOME
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/bridge
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/stats/svm/tools
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/stats/svm
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/stats
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/utils/contract
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/utils/xml
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava/utils
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org/biojava
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api/org
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01/api
+%%PORTDOCS%%@dirrm %%DOCSDIR%%-1.01
diff --git a/biology/coalesce/pkg-plist b/biology/coalesce/pkg-plist
index 4f63eb5abe2d..3d66316d6716 100644
--- a/biology/coalesce/pkg-plist
+++ b/biology/coalesce/pkg-plist
@@ -1,4 +1,4 @@
bin/coalesce
-%%PORTDOCS%%share/doc/coalesce/coalesce.doc
-%%PORTDOCS%%share/doc/coalesce/errors.doc
-%%PORTDOCS%%@dirrm share/doc/coalesce
+%%PORTDOCS%%%%DOCSDIR%%/coalesce.doc
+%%PORTDOCS%%%%DOCSDIR%%/errors.doc
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/crimap/pkg-plist b/biology/crimap/pkg-plist
index cd57f6bcc5ff..11af7430c94b 100644
--- a/biology/crimap/pkg-plist
+++ b/biology/crimap/pkg-plist
@@ -1,6 +1,6 @@
bin/crimap
-%%PORTDOCS%%share/doc/crimap/progdoc_v2.4
+%%PORTDOCS%%%%DOCSDIR%%/progdoc_v2.4
%%PORTDOCS%%share/examples/crimap/chr7a.gen
%%PORTDOCS%%share/examples/crimap/demo.dat
-%%PORTDOCS%%@dirrm share/doc/crimap
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
%%PORTDOCS%%@dirrm share/examples/crimap
diff --git a/biology/dna-qc/pkg-plist b/biology/dna-qc/pkg-plist
index 09192275d6fa..b9e9afbcf6b3 100644
--- a/biology/dna-qc/pkg-plist
+++ b/biology/dna-qc/pkg-plist
@@ -3,17 +3,17 @@ bin/hybridize
bin/normalize
bin/random_clip
bin/random_line
-%%PORTDOCS%%share/doc/dna-qc/qc_algorithm.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig1.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig2a.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig2b.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig2c.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig3.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig4.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig5.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig6.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/qc_fig7.ps.Z
-%%PORTDOCS%%share/doc/dna-qc/surprize.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_algorithm.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig1.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig2a.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig2b.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig2c.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig3.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig4.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig5.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig6.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/qc_fig7.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/surprize.ps.Z
%%PORTDOCS%%share/examples/dna-qc/README
%%PORTDOCS%%share/examples/dna-qc/bact.all
%%PORTDOCS%%share/examples/dna-qc/chromosomeIII.all
@@ -22,4 +22,4 @@ bin/random_line
%%PORTDOCS%%share/examples/dna-qc/script.limits
%%PORTDOCS%%share/examples/dna-qc/worm.all
%%PORTDOCS%%@dirrm share/examples/dna-qc
-%%PORTDOCS%%@dirrm share/doc/dna-qc
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/fasta/pkg-plist b/biology/fasta/pkg-plist
index 7b65ef9c827a..9f36d21c1b9d 100644
--- a/biology/fasta/pkg-plist
+++ b/biology/fasta/pkg-plist
@@ -1,15 +1,15 @@
-%%PORTDOCS%%share/doc/fasta/COPYRIGHT
-%%PORTDOCS%%share/doc/fasta/README.versions
-%%PORTDOCS%%share/doc/fasta/fasta20.doc
-%%PORTDOCS%%share/doc/fasta/fasta20.me
-%%PORTDOCS%%share/doc/fasta/format.doc
-%%PORTDOCS%%share/doc/fasta/readme.v15
-%%PORTDOCS%%share/doc/fasta/readme.v16
-%%PORTDOCS%%share/doc/fasta/readme.v17
-%%PORTDOCS%%share/doc/fasta/readme.v20
-%%PORTDOCS%%share/doc/fasta/readme.v20u4
-%%PORTDOCS%%share/doc/fasta/readme.v20u5
-%%PORTDOCS%%share/doc/fasta/readme.v20u6
+%%PORTDOCS%%%%DOCSDIR%%/COPYRIGHT
+%%PORTDOCS%%%%DOCSDIR%%/README.versions
+%%PORTDOCS%%%%DOCSDIR%%/fasta20.doc
+%%PORTDOCS%%%%DOCSDIR%%/fasta20.me
+%%PORTDOCS%%%%DOCSDIR%%/format.doc
+%%PORTDOCS%%%%DOCSDIR%%/readme.v15
+%%PORTDOCS%%%%DOCSDIR%%/readme.v16
+%%PORTDOCS%%%%DOCSDIR%%/readme.v17
+%%PORTDOCS%%%%DOCSDIR%%/readme.v20
+%%PORTDOCS%%%%DOCSDIR%%/readme.v20u4
+%%PORTDOCS%%%%DOCSDIR%%/readme.v20u5
+%%PORTDOCS%%%%DOCSDIR%%/readme.v20u6
bin/aacomp
bin/align
bin/align0
@@ -35,4 +35,4 @@ bin/tfasta
bin/tfastx
bin/tgrease
bin/zs_exp
-%%PORTDOCS%%@dirrm share/doc/fasta
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/fasta3/pkg-plist b/biology/fasta3/pkg-plist
index a73cd6e197a8..6e00e86ccfef 100644
--- a/biology/fasta3/pkg-plist
+++ b/biology/fasta3/pkg-plist
@@ -1,22 +1,22 @@
-%%PORTDOCS%%share/doc/fasta3/00README.1st
-%%PORTDOCS%%share/doc/fasta3/COPYRIGHT
-%%PORTDOCS%%share/doc/fasta3/README
-%%PORTDOCS%%share/doc/fasta3/fasta3x.doc
-%%PORTDOCS%%share/doc/fasta3/fasta3x.me
-%%PORTDOCS%%share/doc/fasta3/readme.mpi_3.3
-%%PORTDOCS%%share/doc/fasta3/readme.pvm_2.0
-%%PORTDOCS%%share/doc/fasta3/readme.pvm_3.0
-%%PORTDOCS%%share/doc/fasta3/readme.pvm_3.2
-%%PORTDOCS%%share/doc/fasta3/readme.pvm_3.3
-%%PORTDOCS%%share/doc/fasta3/readme.pvm_3.4
-%%PORTDOCS%%share/doc/fasta3/readme.v30
-%%PORTDOCS%%share/doc/fasta3/readme.v30t6
-%%PORTDOCS%%share/doc/fasta3/readme.v30t7
-%%PORTDOCS%%share/doc/fasta3/readme.v31t0
-%%PORTDOCS%%share/doc/fasta3/readme.v31t1
-%%PORTDOCS%%share/doc/fasta3/readme.v32t0
-%%PORTDOCS%%share/doc/fasta3/readme.v33t0
-%%PORTDOCS%%share/doc/fasta3/readme.w32
+%%PORTDOCS%%%%DOCSDIR%%/00README.1st
+%%PORTDOCS%%%%DOCSDIR%%/COPYRIGHT
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/fasta3x.doc
+%%PORTDOCS%%%%DOCSDIR%%/fasta3x.me
+%%PORTDOCS%%%%DOCSDIR%%/readme.mpi_3.3
+%%PORTDOCS%%%%DOCSDIR%%/readme.pvm_2.0
+%%PORTDOCS%%%%DOCSDIR%%/readme.pvm_3.0
+%%PORTDOCS%%%%DOCSDIR%%/readme.pvm_3.2
+%%PORTDOCS%%%%DOCSDIR%%/readme.pvm_3.3
+%%PORTDOCS%%%%DOCSDIR%%/readme.pvm_3.4
+%%PORTDOCS%%%%DOCSDIR%%/readme.v30
+%%PORTDOCS%%%%DOCSDIR%%/readme.v30t6
+%%PORTDOCS%%%%DOCSDIR%%/readme.v30t7
+%%PORTDOCS%%%%DOCSDIR%%/readme.v31t0
+%%PORTDOCS%%%%DOCSDIR%%/readme.v31t1
+%%PORTDOCS%%%%DOCSDIR%%/readme.v32t0
+%%PORTDOCS%%%%DOCSDIR%%/readme.v33t0
+%%PORTDOCS%%%%DOCSDIR%%/readme.w32
bin/fasta3
bin/fasta3_t
bin/fastf3
@@ -42,4 +42,4 @@ bin/tfastx3_t
bin/tfasty3
bin/tfasty3_t
etc/fastlibs.sample
-%%PORTDOCS%%@dirrm share/doc/fasta3
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/fastdnaml/pkg-plist b/biology/fastdnaml/pkg-plist
index cc19e20c3922..6fb7853d1ed0 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
-%%PORTDOCS%%share/doc/fastdnaml/fastDNAml_doc_1.2.txt
-%%PORTDOCS%%share/doc/fastdnaml/fastDNAml_scripts.txt
+%%PORTDOCS%%%%DOCSDIR%%/fastDNAml_doc_1.2.txt
+%%PORTDOCS%%%%DOCSDIR%%/fastDNAml_scripts.txt
@dirrm bin/fastdnaml
-%%PORTDOCS%%@dirrm share/doc/fastdnaml
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/fluctuate/pkg-plist b/biology/fluctuate/pkg-plist
index 6aed79770140..2adc88acb913 100644
--- a/biology/fluctuate/pkg-plist
+++ b/biology/fluctuate/pkg-plist
@@ -1,4 +1,4 @@
bin/fluctuate
-%%PORTDOCS%%share/doc/fluctuate/errors.doc
-%%PORTDOCS%%share/doc/fluctuate/fluctuate.doc
-%%PORTDOCS%%@dirrm share/doc/fluctuate
+%%PORTDOCS%%%%DOCSDIR%%/errors.doc
+%%PORTDOCS%%%%DOCSDIR%%/fluctuate.doc
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/garlic/pkg-plist b/biology/garlic/pkg-plist
index 6bb84f75df6b..ba1555bf8560 100644
--- a/biology/garlic/pkg-plist
+++ b/biology/garlic/pkg-plist
@@ -2,274 +2,274 @@ bin/garlic
share/garlic/.garlicrc
share/garlic/residues.pdb
@dirrm share/garlic
-%%PORTDOCS%%share/doc/garlic/data/favicon.ico
-%%PORTDOCS%%share/doc/garlic/data/index.html
-%%PORTDOCS%%share/doc/garlic/data/garlic.gif
-%%PORTDOCS%%share/doc/garlic/favicon.ico
-%%PORTDOCS%%share/doc/garlic/refcard/favicon.ico
-%%PORTDOCS%%share/doc/garlic/refcard/index.html
-%%PORTDOCS%%share/doc/garlic/refcard/garlic.gif
-%%PORTDOCS%%share/doc/garlic/refcard/refcard.html
-%%PORTDOCS%%share/doc/garlic/techinfo/favicon.ico
-%%PORTDOCS%%share/doc/garlic/techinfo/index.html
-%%PORTDOCS%%share/doc/garlic/techinfo/garlic.gif
-%%PORTDOCS%%share/doc/garlic/mouse/favicon.ico
-%%PORTDOCS%%share/doc/garlic/mouse/neighbor.gif
-%%PORTDOCS%%share/doc/garlic/mouse/outplot.gif
-%%PORTDOCS%%share/doc/garlic/mouse/index.html
-%%PORTDOCS%%share/doc/garlic/mouse/.xvpics/outplot.gif
-%%PORTDOCS%%share/doc/garlic/mouse/.xvpics/outstr.gif
-%%PORTDOCS%%share/doc/garlic/mouse/.xvpics/outcomp.gif
-%%PORTDOCS%%share/doc/garlic/mouse/.xvpics/outrama.gif
-%%PORTDOCS%%share/doc/garlic/mouse/outstr.gif
-%%PORTDOCS%%share/doc/garlic/mouse/outcomp.gif
-%%PORTDOCS%%share/doc/garlic/mouse/outrama.gif
-%%PORTDOCS%%share/doc/garlic/mouse/garlic.gif
-%%PORTDOCS%%share/doc/garlic/README
-%%PORTDOCS%%share/doc/garlic/download/favicon.ico
-%%PORTDOCS%%share/doc/garlic/download/index.html
-%%PORTDOCS%%share/doc/garlic/download/garlic.gif
-%%PORTDOCS%%share/doc/garlic/scripts/favicon.ico
-%%PORTDOCS%%share/doc/garlic/scripts/colors.script
-%%PORTDOCS%%share/doc/garlic/scripts/atoms.script
-%%PORTDOCS%%share/doc/garlic/scripts/probes.script
-%%PORTDOCS%%share/doc/garlic/scripts/bonds.script
-%%PORTDOCS%%share/doc/garlic/scripts/garlic.gif
-%%PORTDOCS%%share/doc/garlic/license/favicon.ico
-%%PORTDOCS%%share/doc/garlic/license/index.html
-%%PORTDOCS%%share/doc/garlic/license/garlic.gif
-%%PORTDOCS%%share/doc/garlic/docs.html
-%%PORTDOCS%%share/doc/garlic/index.html
-%%PORTDOCS%%share/doc/garlic/bold_statement.html
-%%PORTDOCS%%share/doc/garlic/gallery/favicon.ico
-%%PORTDOCS%%share/doc/garlic/gallery/index.html
-%%PORTDOCS%%share/doc/garlic/gallery/small1.png
-%%PORTDOCS%%share/doc/garlic/gallery/small2.png
-%%PORTDOCS%%share/doc/garlic/gallery/small3.png
-%%PORTDOCS%%share/doc/garlic/gallery/small4.png
-%%PORTDOCS%%share/doc/garlic/gallery/small5.png
-%%PORTDOCS%%share/doc/garlic/gallery/small6.png
-%%PORTDOCS%%share/doc/garlic/gallery/small7.png
-%%PORTDOCS%%share/doc/garlic/gallery/small8.png
-%%PORTDOCS%%share/doc/garlic/gallery/small9.png
-%%PORTDOCS%%share/doc/garlic/gallery/small10.png
-%%PORTDOCS%%share/doc/garlic/gallery/small11.png
-%%PORTDOCS%%share/doc/garlic/gallery/small12.png
-%%PORTDOCS%%share/doc/garlic/gallery/garlic.gif
-%%PORTDOCS%%share/doc/garlic/config/favicon.ico
-%%PORTDOCS%%share/doc/garlic/config/.garlicrc
-%%PORTDOCS%%share/doc/garlic/config/index.html
-%%PORTDOCS%%share/doc/garlic/config/garlic.gif
-%%PORTDOCS%%share/doc/garlic/support/favicon.ico
-%%PORTDOCS%%share/doc/garlic/support/index.html
-%%PORTDOCS%%share/doc/garlic/support/garlic.gif
-%%PORTDOCS%%share/doc/garlic/commands/fad.html
-%%PORTDOCS%%share/doc/garlic/commands/rep.html
-%%PORTDOCS%%share/doc/garlic/commands/favicon.ico
-%%PORTDOCS%%share/doc/garlic/commands/sho.html
-%%PORTDOCS%%share/doc/garlic/commands/aacodes.gif
-%%PORTDOCS%%share/doc/garlic/commands/pro_hint.gif
-%%PORTDOCS%%share/doc/garlic/commands/res.html
-%%PORTDOCS%%share/doc/garlic/commands/balls_and_sticks.gif
-%%PORTDOCS%%share/doc/garlic/commands/neighbor.gif
-%%PORTDOCS%%share/doc/garlic/commands/ref_off.gif
-%%PORTDOCS%%share/doc/garlic/commands/eis_oct.gif
-%%PORTDOCS%%share/doc/garlic/commands/sav.html
-%%PORTDOCS%%share/doc/garlic/commands/sca.html
-%%PORTDOCS%%share/doc/garlic/commands/plot1.gif
-%%PORTDOCS%%share/doc/garlic/commands/plot2.gif
-%%PORTDOCS%%share/doc/garlic/commands/plot3.gif
-%%PORTDOCS%%share/doc/garlic/commands/wheel.gif
-%%PORTDOCS%%share/doc/garlic/commands/dock1.jpg
-%%PORTDOCS%%share/doc/garlic/commands/dock2.jpg
-%%PORTDOCS%%share/doc/garlic/commands/fon.html
-%%PORTDOCS%%share/doc/garlic/commands/dis.html
-%%PORTDOCS%%share/doc/garlic/commands/seahorse.gif
-%%PORTDOCS%%share/doc/garlic/commands/dihedrals.html
-%%PORTDOCS%%share/doc/garlic/commands/gro.html
-%%PORTDOCS%%share/doc/garlic/commands/tfg.html
-%%PORTDOCS%%share/doc/garlic/commands/small_probe.gif
-%%PORTDOCS%%share/doc/garlic/commands/rad.html
-%%PORTDOCS%%share/doc/garlic/commands/plane1.jpg
-%%PORTDOCS%%share/doc/garlic/commands/plane2.jpg
-%%PORTDOCS%%share/doc/garlic/commands/plane3.jpg
-%%PORTDOCS%%share/doc/garlic/commands/whe.html
-%%PORTDOCS%%share/doc/garlic/commands/pat.html
-%%PORTDOCS%%share/doc/garlic/commands/pau.html
-%%PORTDOCS%%share/doc/garlic/commands/pos.html
-%%PORTDOCS%%share/doc/garlic/commands/kd_oct.gif
-%%PORTDOCS%%share/doc/garlic/commands/generic_hint.gif
-%%PORTDOCS%%share/doc/garlic/commands/index.html
-%%PORTDOCS%%share/doc/garlic/commands/phipsi.gif
-%%PORTDOCS%%share/doc/garlic/commands/mon.html
-%%PORTDOCS%%share/doc/garlic/commands/col.html
-%%PORTDOCS%%share/doc/garlic/commands/hid.html
-%%PORTDOCS%%share/doc/garlic/commands/com.html
-%%PORTDOCS%%share/doc/garlic/commands/ven.html
-%%PORTDOCS%%share/doc/garlic/commands/atoms.gif
-%%PORTDOCS%%share/doc/garlic/commands/ram.html
-%%PORTDOCS%%share/doc/garlic/commands/chi_angles.gif
-%%PORTDOCS%%share/doc/garlic/commands/str.gif
-%%PORTDOCS%%share/doc/garlic/commands/sla.html
-%%PORTDOCS%%share/doc/garlic/commands/cat.html
-%%PORTDOCS%%share/doc/garlic/commands/nei.html
-%%PORTDOCS%%share/doc/garlic/commands/blu.html
-%%PORTDOCS%%share/doc/garlic/commands/venn.gif
-%%PORTDOCS%%share/doc/garlic/commands/add.html
-%%PORTDOCS%%share/doc/garlic/commands/mov.html
-%%PORTDOCS%%share/doc/garlic/commands/residues.html
-%%PORTDOCS%%share/doc/garlic/commands/ssb.html
-%%PORTDOCS%%share/doc/garlic/commands/probes.gif
-%%PORTDOCS%%share/doc/garlic/commands/id.gif
-%%PORTDOCS%%share/doc/garlic/commands/ramacont.gif
-%%PORTDOCS%%share/doc/garlic/commands/tag.html
-%%PORTDOCS%%share/doc/garlic/commands/insert
-%%PORTDOCS%%share/doc/garlic/commands/stefin1.jpg
-%%PORTDOCS%%share/doc/garlic/commands/stefin2.jpg
-%%PORTDOCS%%share/doc/garlic/commands/rot.html
-%%PORTDOCS%%share/doc/garlic/commands/omega_hint.gif
-%%PORTDOCS%%share/doc/garlic/commands/win.html
-%%PORTDOCS%%share/doc/garlic/commands/sel.html
-%%PORTDOCS%%share/doc/garlic/commands/lab.html
-%%PORTDOCS%%share/doc/garlic/commands/dummy_atoms.html
-%%PORTDOCS%%share/doc/garlic/commands/loa.html
-%%PORTDOCS%%share/doc/garlic/commands/substmat.gif
-%%PORTDOCS%%share/doc/garlic/commands/bonds.gif
-%%PORTDOCS%%share/doc/garlic/commands/bg.html
-%%PORTDOCS%%share/doc/garlic/commands/bac.html
-%%PORTDOCS%%share/doc/garlic/commands/seq.html
-%%PORTDOCS%%share/doc/garlic/commands/patterns.gif
-%%PORTDOCS%%share/doc/garlic/commands/pla.html
-%%PORTDOCS%%share/doc/garlic/commands/colors.png
-%%PORTDOCS%%share/doc/garlic/commands/ste.html
-%%PORTDOCS%%share/doc/garlic/commands/tbg.html
-%%PORTDOCS%%share/doc/garlic/commands/log.html
-%%PORTDOCS%%share/doc/garlic/commands/set.html
-%%PORTDOCS%%share/doc/garlic/commands/hyb.html
-%%PORTDOCS%%share/doc/garlic/commands/legend.gif
-%%PORTDOCS%%share/doc/garlic/commands/pro.html
-%%PORTDOCS%%share/doc/garlic/commands/sti.html
-%%PORTDOCS%%share/doc/garlic/commands/cre.html
-%%PORTDOCS%%share/doc/garlic/commands/bal.html
-%%PORTDOCS%%share/doc/garlic/commands/squid.gif
-%%PORTDOCS%%share/doc/garlic/commands/exe.html
-%%PORTDOCS%%share/doc/garlic/commands/bon.html
-%%PORTDOCS%%share/doc/garlic/commands/garlic.gif
-%%PORTDOCS%%share/doc/garlic/commands/plot_eq1.gif
-%%PORTDOCS%%share/doc/garlic/commands/plot_eq2.gif
-%%PORTDOCS%%share/doc/garlic/commands/ign.html
-%%PORTDOCS%%share/doc/garlic/commands/plo.html
-%%PORTDOCS%%share/doc/garlic/commands/str.html
-%%PORTDOCS%%share/doc/garlic/commands/exi.html
-%%PORTDOCS%%share/doc/garlic/commands/doc.html
-%%PORTDOCS%%share/doc/garlic/commands/tit.html
-%%PORTDOCS%%share/doc/garlic/commands/schemes.jpg
-%%PORTDOCS%%share/doc/garlic/commands/papain1.jpg
-%%PORTDOCS%%share/doc/garlic/commands/papain2.jpg
-%%PORTDOCS%%share/doc/garlic/commands/gly_hint.gif
-%%PORTDOCS%%share/doc/garlic/commands/large_probe.gif
-%%PORTDOCS%%share/doc/garlic/commands/ref.html
-%%PORTDOCS%%share/doc/garlic/commands/mem.html
-%%PORTDOCS%%share/doc/garlic/commands/reg.html
-%%PORTDOCS%%share/doc/garlic/commands/prepro_hint.gif
-%%PORTDOCS%%share/doc/garlic/commands/tra.html
-%%PORTDOCS%%share/doc/garlic/commands/edi.html
-%%PORTDOCS%%share/doc/garlic/commands/cen.html
-%%PORTDOCS%%share/doc/garlic/commands/ato.html
-%%PORTDOCS%%share/doc/garlic/commands/ramaplot.gif
-%%PORTDOCS%%share/doc/garlic/commands/kd_eis.gif
-%%PORTDOCS%%share/doc/garlic/commands/blur1.gif
-%%PORTDOCS%%share/doc/garlic/commands/blur2.gif
-%%PORTDOCS%%share/doc/garlic/commands/blur3.gif
-%%PORTDOCS%%share/doc/garlic/commands/ang.html
-%%PORTDOCS%%share/doc/garlic/commands/blur4.gif
-%%PORTDOCS%%share/doc/garlic/commands/blur5.gif
-%%PORTDOCS%%share/doc/garlic/commands/blur6.gif
-%%PORTDOCS%%share/doc/garlic/commands/fg.html
-%%PORTDOCS%%share/doc/garlic/commands/blur7.gif
-%%PORTDOCS%%share/doc/garlic/commands/blur8.gif
-%%PORTDOCS%%share/doc/garlic/monster.gif
-%%PORTDOCS%%share/doc/garlic/controls/favicon.ico
-%%PORTDOCS%%share/doc/garlic/controls/funkeys.jpg
-%%PORTDOCS%%share/doc/garlic/controls/term.gif
-%%PORTDOCS%%share/doc/garlic/controls/index.html
-%%PORTDOCS%%share/doc/garlic/controls/numkeys.jpg
-%%PORTDOCS%%share/doc/garlic/controls/pc.gif
-%%PORTDOCS%%share/doc/garlic/controls/garlic.gif
-%%PORTDOCS%%share/doc/garlic/controls/modkeys.jpg
-%%PORTDOCS%%share/doc/garlic/cookbook/index.html
-%%PORTDOCS%%share/doc/garlic/cookbook/garlic_recipe1.html
-%%PORTDOCS%%share/doc/garlic/cookbook/garlic.gif
-%%PORTDOCS%%share/doc/garlic/future-docs.html
-%%PORTDOCS%%share/doc/garlic/features/favicon.ico
-%%PORTDOCS%%share/doc/garlic/features/index.html
-%%PORTDOCS%%share/doc/garlic/features/garlic.gif
-%%PORTDOCS%%share/doc/garlic/bugfixes/favicon.ico
-%%PORTDOCS%%share/doc/garlic/bugfixes/index.html
-%%PORTDOCS%%share/doc/garlic/bugfixes/garlic.gif
-%%PORTDOCS%%share/doc/garlic/tutorial/favicon.ico
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson10.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson11.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson12.html
-%%PORTDOCS%%share/doc/garlic/tutorial/index.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson1.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson2.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson3.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson4.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson5.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson6.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson7.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson8.html
-%%PORTDOCS%%share/doc/garlic/tutorial/lesson9.html
-%%PORTDOCS%%share/doc/garlic/tutorial/script1.html
-%%PORTDOCS%%share/doc/garlic/tutorial/script2.html
-%%PORTDOCS%%share/doc/garlic/tutorial/script3.html
-%%PORTDOCS%%share/doc/garlic/tutorial/script4.html
-%%PORTDOCS%%share/doc/garlic/tutorial/garlic.gif
-%%PORTDOCS%%share/doc/garlic/tutorial/window.gif
-%%PORTDOCS%%share/doc/garlic/whatis/favicon.ico
-%%PORTDOCS%%share/doc/garlic/whatis/index.html
-%%PORTDOCS%%share/doc/garlic/whatis/garlic.gif
-%%PORTDOCS%%share/doc/garlic/competition/index.html
-%%PORTDOCS%%share/doc/garlic/competition/garlic.gif
-%%PORTDOCS%%share/doc/garlic/versions.html
-%%PORTDOCS%%share/doc/garlic/options/favicon.ico
-%%PORTDOCS%%share/doc/garlic/options/index.html
-%%PORTDOCS%%share/doc/garlic/options/garlic.gif
-%%PORTDOCS%%share/doc/garlic/garlic.gif
-%%PORTDOCS%%share/doc/garlic/install/favicon.ico
-%%PORTDOCS%%share/doc/garlic/install/macosx.html
-%%PORTDOCS%%share/doc/garlic/install/index.html
-%%PORTDOCS%%share/doc/garlic/install/octane.html
-%%PORTDOCS%%share/doc/garlic/install/mol_path.html
-%%PORTDOCS%%share/doc/garlic/install/garlic.gif
-%%PORTDOCS%%share/doc/garlic/install/rs6000.html
-%%PORTDOCS%%share/doc/garlic/changes/favicon.ico
-%%PORTDOCS%%share/doc/garlic/changes/index.html
-%%PORTDOCS%%share/doc/garlic/changes/garlic.gif
-%%PORTDOCS%%@dirrm share/doc/garlic/whatis
-%%PORTDOCS%%@dirrm share/doc/garlic/tutorial
-%%PORTDOCS%%@dirrm share/doc/garlic/techinfo
-%%PORTDOCS%%@dirrm share/doc/garlic/support
-%%PORTDOCS%%@dirrm share/doc/garlic/scripts
-%%PORTDOCS%%@dirrm share/doc/garlic/refcard
-%%PORTDOCS%%@dirrm share/doc/garlic/options
-%%PORTDOCS%%@dirrm share/doc/garlic/mouse/.xvpics
-%%PORTDOCS%%@dirrm share/doc/garlic/mouse
-%%PORTDOCS%%@dirrm share/doc/garlic/license
-%%PORTDOCS%%@dirrm share/doc/garlic/install
-%%PORTDOCS%%@dirrm share/doc/garlic/gallery
-%%PORTDOCS%%@dirrm share/doc/garlic/features
-%%PORTDOCS%%@dirrm share/doc/garlic/download
-%%PORTDOCS%%@dirrm share/doc/garlic/data
-%%PORTDOCS%%@dirrm share/doc/garlic/cookbook
-%%PORTDOCS%%@dirrm share/doc/garlic/controls
-%%PORTDOCS%%@dirrm share/doc/garlic/config
-%%PORTDOCS%%@dirrm share/doc/garlic/competition
-%%PORTDOCS%%@dirrm share/doc/garlic/commands
-%%PORTDOCS%%@dirrm share/doc/garlic/changes
-%%PORTDOCS%%@dirrm share/doc/garlic/bugfixes
-%%PORTDOCS%%@dirrm share/doc/garlic
+%%PORTDOCS%%%%DOCSDIR%%/data/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/data/index.html
+%%PORTDOCS%%%%DOCSDIR%%/data/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/refcard/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/refcard/index.html
+%%PORTDOCS%%%%DOCSDIR%%/refcard/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/refcard/refcard.html
+%%PORTDOCS%%%%DOCSDIR%%/techinfo/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/techinfo/index.html
+%%PORTDOCS%%%%DOCSDIR%%/techinfo/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/mouse/neighbor.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/outplot.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/index.html
+%%PORTDOCS%%%%DOCSDIR%%/mouse/.xvpics/outplot.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/.xvpics/outstr.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/.xvpics/outcomp.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/.xvpics/outrama.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/outstr.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/outcomp.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/outrama.gif
+%%PORTDOCS%%%%DOCSDIR%%/mouse/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/download/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/download/index.html
+%%PORTDOCS%%%%DOCSDIR%%/download/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/scripts/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/scripts/colors.script
+%%PORTDOCS%%%%DOCSDIR%%/scripts/atoms.script
+%%PORTDOCS%%%%DOCSDIR%%/scripts/probes.script
+%%PORTDOCS%%%%DOCSDIR%%/scripts/bonds.script
+%%PORTDOCS%%%%DOCSDIR%%/scripts/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/license/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/license/index.html
+%%PORTDOCS%%%%DOCSDIR%%/license/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/docs.html
+%%PORTDOCS%%%%DOCSDIR%%/index.html
+%%PORTDOCS%%%%DOCSDIR%%/bold_statement.html
+%%PORTDOCS%%%%DOCSDIR%%/gallery/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/gallery/index.html
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small1.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small2.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small3.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small4.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small5.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small6.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small7.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small8.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small9.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small10.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small11.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/small12.png
+%%PORTDOCS%%%%DOCSDIR%%/gallery/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/config/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/config/.garlicrc
+%%PORTDOCS%%%%DOCSDIR%%/config/index.html
+%%PORTDOCS%%%%DOCSDIR%%/config/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/support/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/support/index.html
+%%PORTDOCS%%%%DOCSDIR%%/support/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/fad.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/rep.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/commands/sho.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/aacodes.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/pro_hint.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/res.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/balls_and_sticks.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/neighbor.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/ref_off.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/eis_oct.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/sav.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/sca.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/plot1.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/plot2.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/plot3.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/wheel.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/dock1.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/dock2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/fon.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/dis.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/seahorse.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/dihedrals.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/gro.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/tfg.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/small_probe.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/rad.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/plane1.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/plane2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/plane3.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/whe.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/pat.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/pau.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/pos.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/kd_oct.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/generic_hint.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/index.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/phipsi.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/mon.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/col.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/hid.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/com.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/ven.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/atoms.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/ram.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/chi_angles.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/str.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/sla.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/cat.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/nei.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/blu.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/venn.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/add.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/mov.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/residues.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/ssb.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/probes.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/id.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/ramacont.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/tag.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/insert
+%%PORTDOCS%%%%DOCSDIR%%/commands/stefin1.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/stefin2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/rot.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/omega_hint.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/win.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/sel.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/lab.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/dummy_atoms.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/loa.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/substmat.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/bonds.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/bg.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/bac.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/seq.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/patterns.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/pla.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/colors.png
+%%PORTDOCS%%%%DOCSDIR%%/commands/ste.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/tbg.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/log.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/set.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/hyb.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/legend.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/pro.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/sti.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/cre.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/bal.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/squid.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/exe.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/bon.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/plot_eq1.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/plot_eq2.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/ign.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/plo.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/str.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/exi.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/doc.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/tit.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/schemes.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/papain1.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/papain2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/commands/gly_hint.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/large_probe.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/ref.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/mem.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/reg.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/prepro_hint.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/tra.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/edi.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/cen.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/ato.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/ramaplot.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/kd_eis.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur1.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur2.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur3.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/ang.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur4.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur5.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur6.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/fg.html
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur7.gif
+%%PORTDOCS%%%%DOCSDIR%%/commands/blur8.gif
+%%PORTDOCS%%%%DOCSDIR%%/monster.gif
+%%PORTDOCS%%%%DOCSDIR%%/controls/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/controls/funkeys.jpg
+%%PORTDOCS%%%%DOCSDIR%%/controls/term.gif
+%%PORTDOCS%%%%DOCSDIR%%/controls/index.html
+%%PORTDOCS%%%%DOCSDIR%%/controls/numkeys.jpg
+%%PORTDOCS%%%%DOCSDIR%%/controls/pc.gif
+%%PORTDOCS%%%%DOCSDIR%%/controls/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/controls/modkeys.jpg
+%%PORTDOCS%%%%DOCSDIR%%/cookbook/index.html
+%%PORTDOCS%%%%DOCSDIR%%/cookbook/garlic_recipe1.html
+%%PORTDOCS%%%%DOCSDIR%%/cookbook/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/future-docs.html
+%%PORTDOCS%%%%DOCSDIR%%/features/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/features/index.html
+%%PORTDOCS%%%%DOCSDIR%%/features/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/bugfixes/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/bugfixes/index.html
+%%PORTDOCS%%%%DOCSDIR%%/bugfixes/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson10.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson11.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson12.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/index.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson1.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson2.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson3.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson4.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson5.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson6.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson7.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson8.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/lesson9.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/script1.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/script2.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/script3.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/script4.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/tutorial/window.gif
+%%PORTDOCS%%%%DOCSDIR%%/whatis/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/whatis/index.html
+%%PORTDOCS%%%%DOCSDIR%%/whatis/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/competition/index.html
+%%PORTDOCS%%%%DOCSDIR%%/competition/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/versions.html
+%%PORTDOCS%%%%DOCSDIR%%/options/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/options/index.html
+%%PORTDOCS%%%%DOCSDIR%%/options/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/install/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/install/macosx.html
+%%PORTDOCS%%%%DOCSDIR%%/install/index.html
+%%PORTDOCS%%%%DOCSDIR%%/install/octane.html
+%%PORTDOCS%%%%DOCSDIR%%/install/mol_path.html
+%%PORTDOCS%%%%DOCSDIR%%/install/garlic.gif
+%%PORTDOCS%%%%DOCSDIR%%/install/rs6000.html
+%%PORTDOCS%%%%DOCSDIR%%/changes/favicon.ico
+%%PORTDOCS%%%%DOCSDIR%%/changes/index.html
+%%PORTDOCS%%%%DOCSDIR%%/changes/garlic.gif
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/whatis
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/tutorial
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/techinfo
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/support
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/scripts
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/refcard
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/options
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/mouse/.xvpics
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/mouse
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/license
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/install
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/gallery
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/features
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/download
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/data
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/cookbook
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/controls
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/config
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/competition
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/commands
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/changes
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/bugfixes
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
%%PORTDOCS%%%%EXAMPLESDIR%%/1mal.script
%%PORTDOCS%%%%EXAMPLESDIR%%/2fcp.script
%%PORTDOCS%%%%EXAMPLESDIR%%/2omf.script
diff --git a/biology/gff2ps/pkg-plist b/biology/gff2ps/pkg-plist
index 710a9a4e6067..9b7f6e1fa96a 100644
--- a/biology/gff2ps/pkg-plist
+++ b/biology/gff2ps/pkg-plist
@@ -1,3 +1,3 @@
bin/gff2ps
-%%PORTDOCS%%share/doc/gff2ps/MANUAL_GFF2PS_v0.96.ps
-%%PORTDOCS%%@dirrm share/doc/gff2ps
+%%PORTDOCS%%%%DOCSDIR%%/MANUAL_GFF2PS_v0.96.ps
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/hmmer/pkg-plist b/biology/hmmer/pkg-plist
index b633cb15c522..52a347da357a 100644
--- a/biology/hmmer/pkg-plist
+++ b/biology/hmmer/pkg-plist
@@ -14,8 +14,8 @@ bin/sfetch
bin/shuffle
bin/sindex
bin/sreformat
-%%PORTDOCS%%share/doc/hmmer/00README
-%%PORTDOCS%%share/doc/hmmer/COPYRIGHT
-%%PORTDOCS%%share/doc/hmmer/NOTES
-%%PORTDOCS%%share/doc/hmmer/Userguide.pdf
-%%PORTDOCS%%@dirrm share/doc/hmmer
+%%PORTDOCS%%%%DOCSDIR%%/00README
+%%PORTDOCS%%%%DOCSDIR%%/COPYRIGHT
+%%PORTDOCS%%%%DOCSDIR%%/NOTES
+%%PORTDOCS%%%%DOCSDIR%%/Userguide.pdf
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/migrate/pkg-plist b/biology/migrate/pkg-plist
index ff43dc3f9d5b..460d05c482ef 100644
--- a/biology/migrate/pkg-plist
+++ b/biology/migrate/pkg-plist
@@ -1,12 +1,12 @@
bin/migrate
bin/migrate-n
-%%PORTDOCS%%share/doc/migrate/HISTORY
-%%PORTDOCS%%share/doc/migrate/HOWTO-PARALLEL
-%%PORTDOCS%%share/doc/migrate/README
-%%PORTDOCS%%share/doc/migrate/graphics/librarian.gif
-%%PORTDOCS%%share/doc/migrate/graphics/mail.gif
-%%PORTDOCS%%share/doc/migrate/graphics/migrate.gif
-%%PORTDOCS%%share/doc/migrate/graphics/packet.gif
-%%PORTDOCS%%share/doc/migrate/migrate.html
-%%PORTDOCS%%@dirrm share/doc/migrate/graphics
-%%PORTDOCS%%@dirrm share/doc/migrate
+%%PORTDOCS%%%%DOCSDIR%%/HISTORY
+%%PORTDOCS%%%%DOCSDIR%%/HOWTO-PARALLEL
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/graphics/librarian.gif
+%%PORTDOCS%%%%DOCSDIR%%/graphics/mail.gif
+%%PORTDOCS%%%%DOCSDIR%%/graphics/migrate.gif
+%%PORTDOCS%%%%DOCSDIR%%/graphics/packet.gif
+%%PORTDOCS%%%%DOCSDIR%%/migrate.html
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/graphics
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/molden/pkg-plist b/biology/molden/pkg-plist
index 07995f6d4fe3..7979ba25abc2 100644
--- a/biology/molden/pkg-plist
+++ b/biology/molden/pkg-plist
@@ -1,8 +1,8 @@
bin/molden
bin/moldenogl
-%%PORTDOCS%%share/doc/molden/figures.ps.Z
-%%PORTDOCS%%share/doc/molden/manual.ps.Z
-%%PORTDOCS%%share/doc/molden/manual.txt.Z
+%%PORTDOCS%%%%DOCSDIR%%/figures.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/manual.ps.Z
+%%PORTDOCS%%%%DOCSDIR%%/manual.txt.Z
%%PORTDOCS%%share/molden/test/adf.molf
%%PORTDOCS%%share/molden/test/ampac.arc
%%PORTDOCS%%share/molden/test/ampac.test
@@ -51,4 +51,4 @@ bin/moldenogl
%%PORTDOCS%%@dirrm share/molden/test
%%PORTDOCS%%@dirrm share/molden/utils
%%PORTDOCS%%@dirrm share/molden
-%%PORTDOCS%%@dirrm share/doc/molden
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/mopac/pkg-plist b/biology/mopac/pkg-plist
index 7a49ffbf6757..496828c7e4c4 100644
--- a/biology/mopac/pkg-plist
+++ b/biology/mopac/pkg-plist
@@ -1,7 +1,7 @@
bin/MOPAC7
bin/rmopac
-%%PORTDOCS%%share/doc/mopac/mopac.tex
-%%PORTDOCS%%share/doc/mopac/mopac.dvi
+%%PORTDOCS%%%%DOCSDIR%%/mopac.tex
+%%PORTDOCS%%%%DOCSDIR%%/mopac.dvi
%%PORTDOCS%%share/examples/mopac/h2o.dat
%%PORTDOCS%%share/mopac/test/test_cos.dat
%%PORTDOCS%%share/mopac/test/test_cos.out
@@ -14,6 +14,6 @@ bin/rmopac
%%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 %%DOCSDIR%%
%%PORTDOCS%%@dirrm share/mopac/test
%%PORTDOCS%%@dirrm share/mopac
diff --git a/biology/nab/pkg-plist b/biology/nab/pkg-plist
index 27719e7d3fcc..388373ba5080 100644
--- a/biology/nab/pkg-plist
+++ b/biology/nab/pkg-plist
@@ -16,7 +16,7 @@ include/nabtypes.h
lib/cifparse.a
lib/libnab.a
lib/libsym.a
-share/doc/nab/NAB.pdf
+%%DOCSDIR%%/NAB.pdf
share/nab/bin/matextract
share/nab/bin/matgen
share/nab/bin/matmerge
@@ -358,4 +358,4 @@ share/nab/test/2strand.pdb
@dirrm share/nab/dgdb
@dirrm share/nab/bin
@dirrm share/nab
-@dirrm share/doc/nab
+@dirrm %%DOCSDIR%%
diff --git a/biology/ncbi-toolkit/pkg-plist b/biology/ncbi-toolkit/pkg-plist
index de99af6b54d4..d9cd41b1a767 100644
--- a/biology/ncbi-toolkit/pkg-plist
+++ b/biology/ncbi-toolkit/pkg-plist
@@ -1,51 +1,51 @@
-%%PORTDOCS%%share/doc/ncbi-toolkit/FAQ.txt
-%%PORTDOCS%%share/doc/ncbi-toolkit/README-qm
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.asn2xml
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.bcl
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.bls
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.fastacmd
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.formatdb
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.imp
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.mbl
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.nbl
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.pbl
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.rps
-%%PORTDOCS%%share/doc/ncbi-toolkit/README.sdk
-%%PORTDOCS%%share/doc/ncbi-toolkit/asn2gb.txt
-%%PORTDOCS%%share/doc/ncbi-toolkit/asn2gph.txt
-%%PORTDOCS%%share/doc/ncbi-toolkit/dispatcher.html
-%%PORTDOCS%%share/doc/ncbi-toolkit/fa2htgs/README
-%%PORTDOCS%%share/doc/ncbi-toolkit/fa2htgs/updateHtgsDoc
-%%PORTDOCS%%share/doc/ncbi-toolkit/firedialog.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/firewall.html
-%%PORTDOCS%%share/doc/ncbi-toolkit/fwd_check.sh
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/ncbi_sequin.css
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn01.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn02.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn03.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn04.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn05.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn06.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn07.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn08.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn09.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn10.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn11.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn12.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn13.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn14.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn15.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn16.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn17.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn18.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn19.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn20.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn21.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/images/seqn22.gif
-%%PORTDOCS%%share/doc/ncbi-toolkit/ncbixml.txt
-%%PORTDOCS%%share/doc/ncbi-toolkit/sdk.doc
-%%PORTDOCS%%share/doc/ncbi-toolkit/sequin.htm
-%%PORTDOCS%%share/doc/ncbi-toolkit/tbl2asn.txt
+%%PORTDOCS%%%%DOCSDIR%%/FAQ.txt
+%%PORTDOCS%%%%DOCSDIR%%/README-qm
+%%PORTDOCS%%%%DOCSDIR%%/README.asn2xml
+%%PORTDOCS%%%%DOCSDIR%%/README.bcl
+%%PORTDOCS%%%%DOCSDIR%%/README.bls
+%%PORTDOCS%%%%DOCSDIR%%/README.fastacmd
+%%PORTDOCS%%%%DOCSDIR%%/README.formatdb
+%%PORTDOCS%%%%DOCSDIR%%/README.imp
+%%PORTDOCS%%%%DOCSDIR%%/README.mbl
+%%PORTDOCS%%%%DOCSDIR%%/README.nbl
+%%PORTDOCS%%%%DOCSDIR%%/README.pbl
+%%PORTDOCS%%%%DOCSDIR%%/README.rps
+%%PORTDOCS%%%%DOCSDIR%%/README.sdk
+%%PORTDOCS%%%%DOCSDIR%%/asn2gb.txt
+%%PORTDOCS%%%%DOCSDIR%%/asn2gph.txt
+%%PORTDOCS%%%%DOCSDIR%%/dispatcher.html
+%%PORTDOCS%%%%DOCSDIR%%/fa2htgs/README
+%%PORTDOCS%%%%DOCSDIR%%/fa2htgs/updateHtgsDoc
+%%PORTDOCS%%%%DOCSDIR%%/firedialog.gif
+%%PORTDOCS%%%%DOCSDIR%%/firewall.html
+%%PORTDOCS%%%%DOCSDIR%%/fwd_check.sh
+%%PORTDOCS%%%%DOCSDIR%%/images/ncbi_sequin.css
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn01.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn02.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn03.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn04.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn05.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn06.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn07.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn08.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn09.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn10.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn11.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn12.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn13.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn14.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn15.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn16.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn17.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn18.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn19.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn20.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn21.gif
+%%PORTDOCS%%%%DOCSDIR%%/images/seqn22.gif
+%%PORTDOCS%%%%DOCSDIR%%/ncbixml.txt
+%%PORTDOCS%%%%DOCSDIR%%/sdk.doc
+%%PORTDOCS%%%%DOCSDIR%%/sequin.htm
+%%PORTDOCS%%%%DOCSDIR%%/tbl2asn.txt
bin/Nentrez
bin/Psequin
bin/asn2ff
@@ -632,6 +632,6 @@ share/ncbi-toolkit/taxlist.txt
@dirrm include/ncbi
@dirrm lib/ncbi
@dirrm share/ncbi-toolkit
-%%PORTDOCS%%@dirrm share/doc/ncbi-toolkit/images
-%%PORTDOCS%%@dirrm share/doc/ncbi-toolkit/fa2htgs
-%%PORTDOCS%%@dirrm share/doc/ncbi-toolkit
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/images
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/fa2htgs
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/ortep3/pkg-plist b/biology/ortep3/pkg-plist
index de65f4e16853..b92deda426b8 100644
--- a/biology/ortep3/pkg-plist
+++ b/biology/ortep3/pkg-plist
@@ -1,74 +1,74 @@
bin/ortep3
-share/doc/ortep3/README.1st
-share/doc/ortep3/examples/000index.txt
-share/doc/ortep3/examples/ATOMS.DAT
-share/doc/ortep3/examples/READIN.F
-share/doc/ortep3/examples/README.LYSO
-share/doc/ortep3/examples/ahelix.dat
-share/doc/ortep3/examples/ahelix.hp
-share/doc/ortep3/examples/ahelix.ps
-share/doc/ortep3/examples/amylose.dat
-share/doc/ortep3/examples/amylose.hp
-share/doc/ortep3/examples/amylose.ps
-share/doc/ortep3/examples/b12.dat
-share/doc/ortep3/examples/b12.hp
-share/doc/ortep3/examples/b12.ps
-share/doc/ortep3/examples/bcc.dat
-share/doc/ortep3/examples/bcc.hp
-share/doc/ortep3/examples/bcc.ps
-share/doc/ortep3/examples/benzofuran.dat
-share/doc/ortep3/examples/benzofuran.hp
-share/doc/ortep3/examples/benzofuran.ps
-share/doc/ortep3/examples/cubane.dat
-share/doc/ortep3/examples/cubane.hp
-share/doc/ortep3/examples/cubane.ps
-share/doc/ortep3/examples/cyclobutane.dat
-share/doc/ortep3/examples/cyclobutane.hp
-share/doc/ortep3/examples/cyclobutane.ps
-share/doc/ortep3/examples/diamond.dat
-share/doc/ortep3/examples/diamond.hp
-share/doc/ortep3/examples/diamond.ps
-share/doc/ortep3/examples/fcc.dat
-share/doc/ortep3/examples/fcc.hp
-share/doc/ortep3/examples/fcc.ps
-share/doc/ortep3/examples/graphite.dat
-share/doc/ortep3/examples/graphite.hp
-share/doc/ortep3/examples/graphite.ps
-share/doc/ortep3/examples/hcp.dat
-share/doc/ortep3/examples/hcp.hp
-share/doc/ortep3/examples/hcp.ps
-share/doc/ortep3/examples/hyox3h.dat
-share/doc/ortep3/examples/hyox3h.hp
-share/doc/ortep3/examples/hyox3h.ps
-share/doc/ortep3/examples/lyso.dat
-share/doc/ortep3/examples/lyso1.hp
-share/doc/ortep3/examples/lyso1.ps
-share/doc/ortep3/examples/lyso2.hp
-share/doc/ortep3/examples/lyso2.ps
-share/doc/ortep3/examples/lyso3.hp
-share/doc/ortep3/examples/lyso3.ps
-share/doc/ortep3/examples/mgpyrin.dat
-share/doc/ortep3/examples/mgpyrin.hp
-share/doc/ortep3/examples/mgpyrin.ps
-share/doc/ortep3/examples/nacl.dat
-share/doc/ortep3/examples/nacl.hp
-share/doc/ortep3/examples/nacl.ps
-share/doc/ortep3/examples/norbornanone.dat
-share/doc/ortep3/examples/norbornanone.hp
-share/doc/ortep3/examples/norbornanone.ps
-share/doc/ortep3/examples/thiourea.dat
-share/doc/ortep3/examples/thiourea.hp
-share/doc/ortep3/examples/thiourea.ps
-share/doc/ortep3/examples/thornitrate.dat
-share/doc/ortep3/examples/thornitrate.hp
-share/doc/ortep3/examples/thornitrate.ps
-share/doc/ortep3/examples/xenate.dat
-share/doc/ortep3/examples/xenate.hp
-share/doc/ortep3/examples/xenate.ps
-share/doc/ortep3/man/000readme.txt
-share/doc/ortep3/man/instrsum.ps
-share/doc/ortep3/src/000readme.txt
-@dirrm share/doc/ortep3/examples
-@dirrm share/doc/ortep3/man
-@dirrm share/doc/ortep3/src
-@dirrm share/doc/ortep3
+%%DOCSDIR%%/README.1st
+%%DOCSDIR%%/examples/000index.txt
+%%DOCSDIR%%/examples/ATOMS.DAT
+%%DOCSDIR%%/examples/READIN.F
+%%DOCSDIR%%/examples/README.LYSO
+%%DOCSDIR%%/examples/ahelix.dat
+%%DOCSDIR%%/examples/ahelix.hp
+%%DOCSDIR%%/examples/ahelix.ps
+%%DOCSDIR%%/examples/amylose.dat
+%%DOCSDIR%%/examples/amylose.hp
+%%DOCSDIR%%/examples/amylose.ps
+%%DOCSDIR%%/examples/b12.dat
+%%DOCSDIR%%/examples/b12.hp
+%%DOCSDIR%%/examples/b12.ps
+%%DOCSDIR%%/examples/bcc.dat
+%%DOCSDIR%%/examples/bcc.hp
+%%DOCSDIR%%/examples/bcc.ps
+%%DOCSDIR%%/examples/benzofuran.dat
+%%DOCSDIR%%/examples/benzofuran.hp
+%%DOCSDIR%%/examples/benzofuran.ps
+%%DOCSDIR%%/examples/cubane.dat
+%%DOCSDIR%%/examples/cubane.hp
+%%DOCSDIR%%/examples/cubane.ps
+%%DOCSDIR%%/examples/cyclobutane.dat
+%%DOCSDIR%%/examples/cyclobutane.hp
+%%DOCSDIR%%/examples/cyclobutane.ps
+%%DOCSDIR%%/examples/diamond.dat
+%%DOCSDIR%%/examples/diamond.hp
+%%DOCSDIR%%/examples/diamond.ps
+%%DOCSDIR%%/examples/fcc.dat
+%%DOCSDIR%%/examples/fcc.hp
+%%DOCSDIR%%/examples/fcc.ps
+%%DOCSDIR%%/examples/graphite.dat
+%%DOCSDIR%%/examples/graphite.hp
+%%DOCSDIR%%/examples/graphite.ps
+%%DOCSDIR%%/examples/hcp.dat
+%%DOCSDIR%%/examples/hcp.hp
+%%DOCSDIR%%/examples/hcp.ps
+%%DOCSDIR%%/examples/hyox3h.dat
+%%DOCSDIR%%/examples/hyox3h.hp
+%%DOCSDIR%%/examples/hyox3h.ps
+%%DOCSDIR%%/examples/lyso.dat
+%%DOCSDIR%%/examples/lyso1.hp
+%%DOCSDIR%%/examples/lyso1.ps
+%%DOCSDIR%%/examples/lyso2.hp
+%%DOCSDIR%%/examples/lyso2.ps
+%%DOCSDIR%%/examples/lyso3.hp
+%%DOCSDIR%%/examples/lyso3.ps
+%%DOCSDIR%%/examples/mgpyrin.dat
+%%DOCSDIR%%/examples/mgpyrin.hp
+%%DOCSDIR%%/examples/mgpyrin.ps
+%%DOCSDIR%%/examples/nacl.dat
+%%DOCSDIR%%/examples/nacl.hp
+%%DOCSDIR%%/examples/nacl.ps
+%%DOCSDIR%%/examples/norbornanone.dat
+%%DOCSDIR%%/examples/norbornanone.hp
+%%DOCSDIR%%/examples/norbornanone.ps
+%%DOCSDIR%%/examples/thiourea.dat
+%%DOCSDIR%%/examples/thiourea.hp
+%%DOCSDIR%%/examples/thiourea.ps
+%%DOCSDIR%%/examples/thornitrate.dat
+%%DOCSDIR%%/examples/thornitrate.hp
+%%DOCSDIR%%/examples/thornitrate.ps
+%%DOCSDIR%%/examples/xenate.dat
+%%DOCSDIR%%/examples/xenate.hp
+%%DOCSDIR%%/examples/xenate.ps
+%%DOCSDIR%%/man/000readme.txt
+%%DOCSDIR%%/man/instrsum.ps
+%%DOCSDIR%%/src/000readme.txt
+@dirrm %%DOCSDIR%%/examples
+@dirrm %%DOCSDIR%%/man
+@dirrm %%DOCSDIR%%/src
+@dirrm %%DOCSDIR%%
diff --git a/biology/paml/pkg-plist b/biology/paml/pkg-plist
index 752da1f20a6d..72fe68191f64 100644
--- a/biology/paml/pkg-plist
+++ b/biology/paml/pkg-plist
@@ -7,5 +7,5 @@ bin/evolver
bin/mcmctree
bin/pamp
bin/yn00
-%%PORTDOCS%%share/doc/paml/pamlDOC.pdf
-%%PORTDOCS%%@dirrm share/doc/paml
+%%PORTDOCS%%%%DOCSDIR%%/pamlDOC.pdf
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/phylip/pkg-plist b/biology/phylip/pkg-plist
index 5cc2e8cbd326..0a64b8322cc6 100644
--- a/biology/phylip/pkg-plist
+++ b/biology/phylip/pkg-plist
@@ -33,46 +33,46 @@ bin/restml
bin/retree
bin/seqboot
bin/treedist
-%%PORTDOCS%%share/doc/phylip/clique.html
-%%PORTDOCS%%share/doc/phylip/consense.html
-%%PORTDOCS%%share/doc/phylip/contchar.html
-%%PORTDOCS%%share/doc/phylip/contml.html
-%%PORTDOCS%%share/doc/phylip/contrast.html
-%%PORTDOCS%%share/doc/phylip/discrete.html
-%%PORTDOCS%%share/doc/phylip/distance.html
-%%PORTDOCS%%share/doc/phylip/dnacomp.html
-%%PORTDOCS%%share/doc/phylip/dnadist.html
-%%PORTDOCS%%share/doc/phylip/dnainvar.html
-%%PORTDOCS%%share/doc/phylip/dnaml.html
-%%PORTDOCS%%share/doc/phylip/dnamlk.html
-%%PORTDOCS%%share/doc/phylip/dnamove.html
-%%PORTDOCS%%share/doc/phylip/dnapars.html
-%%PORTDOCS%%share/doc/phylip/dnapenny.html
-%%PORTDOCS%%share/doc/phylip/dollop.html
-%%PORTDOCS%%share/doc/phylip/dolmove.html
-%%PORTDOCS%%share/doc/phylip/dolpenny.html
-%%PORTDOCS%%share/doc/phylip/draw.html
-%%PORTDOCS%%share/doc/phylip/drawgram.html
-%%PORTDOCS%%share/doc/phylip/drawtree.html
-%%PORTDOCS%%share/doc/phylip/factor.html
-%%PORTDOCS%%share/doc/phylip/fitch.html
-%%PORTDOCS%%share/doc/phylip/gendist.html
-%%PORTDOCS%%share/doc/phylip/kitsch.html
-%%PORTDOCS%%share/doc/phylip/main.html
-%%PORTDOCS%%share/doc/phylip/mix.html
-%%PORTDOCS%%share/doc/phylip/move.html
-%%PORTDOCS%%share/doc/phylip/neighbor.html
-%%PORTDOCS%%share/doc/phylip/pars.html
-%%PORTDOCS%%share/doc/phylip/penny.html
-%%PORTDOCS%%share/doc/phylip/phylip.gif
-%%PORTDOCS%%share/doc/phylip/proml.html
-%%PORTDOCS%%share/doc/phylip/promlk.html
-%%PORTDOCS%%share/doc/phylip/protdist.html
-%%PORTDOCS%%share/doc/phylip/protpars.html
-%%PORTDOCS%%share/doc/phylip/restdist.html
-%%PORTDOCS%%share/doc/phylip/restml.html
-%%PORTDOCS%%share/doc/phylip/retree.html
-%%PORTDOCS%%share/doc/phylip/seqboot.html
-%%PORTDOCS%%share/doc/phylip/sequence.html
-%%PORTDOCS%%share/doc/phylip/treedist.html
-%%PORTDOCS%%@dirrm share/doc/phylip
+%%PORTDOCS%%%%DOCSDIR%%/clique.html
+%%PORTDOCS%%%%DOCSDIR%%/consense.html
+%%PORTDOCS%%%%DOCSDIR%%/contchar.html
+%%PORTDOCS%%%%DOCSDIR%%/contml.html
+%%PORTDOCS%%%%DOCSDIR%%/contrast.html
+%%PORTDOCS%%%%DOCSDIR%%/discrete.html
+%%PORTDOCS%%%%DOCSDIR%%/distance.html
+%%PORTDOCS%%%%DOCSDIR%%/dnacomp.html
+%%PORTDOCS%%%%DOCSDIR%%/dnadist.html
+%%PORTDOCS%%%%DOCSDIR%%/dnainvar.html
+%%PORTDOCS%%%%DOCSDIR%%/dnaml.html
+%%PORTDOCS%%%%DOCSDIR%%/dnamlk.html
+%%PORTDOCS%%%%DOCSDIR%%/dnamove.html
+%%PORTDOCS%%%%DOCSDIR%%/dnapars.html
+%%PORTDOCS%%%%DOCSDIR%%/dnapenny.html
+%%PORTDOCS%%%%DOCSDIR%%/dollop.html
+%%PORTDOCS%%%%DOCSDIR%%/dolmove.html
+%%PORTDOCS%%%%DOCSDIR%%/dolpenny.html
+%%PORTDOCS%%%%DOCSDIR%%/draw.html
+%%PORTDOCS%%%%DOCSDIR%%/drawgram.html
+%%PORTDOCS%%%%DOCSDIR%%/drawtree.html
+%%PORTDOCS%%%%DOCSDIR%%/factor.html
+%%PORTDOCS%%%%DOCSDIR%%/fitch.html
+%%PORTDOCS%%%%DOCSDIR%%/gendist.html
+%%PORTDOCS%%%%DOCSDIR%%/kitsch.html
+%%PORTDOCS%%%%DOCSDIR%%/main.html
+%%PORTDOCS%%%%DOCSDIR%%/mix.html
+%%PORTDOCS%%%%DOCSDIR%%/move.html
+%%PORTDOCS%%%%DOCSDIR%%/neighbor.html
+%%PORTDOCS%%%%DOCSDIR%%/pars.html
+%%PORTDOCS%%%%DOCSDIR%%/penny.html
+%%PORTDOCS%%%%DOCSDIR%%/phylip.gif
+%%PORTDOCS%%%%DOCSDIR%%/proml.html
+%%PORTDOCS%%%%DOCSDIR%%/promlk.html
+%%PORTDOCS%%%%DOCSDIR%%/protdist.html
+%%PORTDOCS%%%%DOCSDIR%%/protpars.html
+%%PORTDOCS%%%%DOCSDIR%%/restdist.html
+%%PORTDOCS%%%%DOCSDIR%%/restml.html
+%%PORTDOCS%%%%DOCSDIR%%/retree.html
+%%PORTDOCS%%%%DOCSDIR%%/seqboot.html
+%%PORTDOCS%%%%DOCSDIR%%/sequence.html
+%%PORTDOCS%%%%DOCSDIR%%/treedist.html
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/platon/pkg-plist b/biology/platon/pkg-plist
index 41cab0a8c004..9faef0196168 100644
--- a/biology/platon/pkg-plist
+++ b/biology/platon/pkg-plist
@@ -1,90 +1,90 @@
bin/platon
bin/pluton
-share/doc/platon/TEST/ABSORB_EXAMPLE/s588a.hkl.gz
-share/doc/platon/TEST/ABSORB_EXAMPLE/s588a.hkp.gz
-share/doc/platon/TEST/ABSORB_EXAMPLE/s588a.ins
-share/doc/platon/TEST/ABSORB_EXAMPLE/s588a.lis
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s555b.hkl.gz
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s555b.hkp.gz
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s555b.ins
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s555b.lis.gz
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s588a.hkl.gz
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s588a.hkp.gz
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s588a.ins
-share/doc/platon/TEST/ABSTOMPA_EXAMPLE/s588a.lis.gz
-share/doc/platon/TEST/ABSTOMPA_TEST/README
-share/doc/platon/TEST/ABSTOMPA_TEST/abstest.hkl
-share/doc/platon/TEST/ABSTOMPA_TEST/abstest.hkp
-share/doc/platon/TEST/ABSTOMPA_TEST/abstest.ins
-share/doc/platon/TEST/ABSTOMPA_TEST/abstest.lis
-share/doc/platon/TEST/ABSTOMPA_TEST/stand.hkl
-share/doc/platon/TEST/ABSTOMPA_TEST/stand.hkp
-share/doc/platon/TEST/ABSTOMPA_TEST/stand.ins
-share/doc/platon/TEST/ABSTOMPA_TEST/stand.lis
-share/doc/platon/TEST/ABSTOMPA_TEST/test1.hkl
-share/doc/platon/TEST/ABSTOMPA_TEST/test1.hkp
-share/doc/platon/TEST/ABSTOMPA_TEST/test1.ins
-share/doc/platon/TEST/ABSTOMPA_TEST/test1.lis
-share/doc/platon/TEST/ABSTOMPA_TEST/test2.hkl
-share/doc/platon/TEST/ABSTOMPA_TEST/test2.hkp
-share/doc/platon/TEST/ABSTOMPA_TEST/test2.ins
-share/doc/platon/TEST/ABSTOMPA_TEST/test2.lis
-share/doc/platon/TEST/ADDSYM_EXAMPLE/README
-share/doc/platon/TEST/ADDSYM_EXAMPLE/ex1.spf
-share/doc/platon/TEST/ADDSYM_EXAMPLE/ex2.ins
-share/doc/platon/TEST/ADDSYM_EXAMPLE/ex3.spf
-share/doc/platon/TEST/ASYM_EXAMPLE/README
-share/doc/platon/TEST/ASYM_EXAMPLE/asym.hkl.gz
-share/doc/platon/TEST/ASYM_EXAMPLE/asym.hkp.gz
-share/doc/platon/TEST/ASYM_EXAMPLE/asym.ins
-share/doc/platon/TEST/ASYM_EXAMPLE/asym.lis.gz
-share/doc/platon/TEST/DELABS_EXAMPLE/s588a.hkl.gz
-share/doc/platon/TEST/DELABS_EXAMPLE/s588a.hkp.gz
-share/doc/platon/TEST/DELABS_EXAMPLE/s588a.lis
-share/doc/platon/TEST/DELABS_EXAMPLE/s588a.res
-share/doc/platon/TEST/MULABS_EXAMPLE/shelx.hkl.gz
-share/doc/platon/TEST/MULABS_EXAMPLE/shelx.hkp.gz
-share/doc/platon/TEST/MULABS_EXAMPLE/shelx.ins.gz
-share/doc/platon/TEST/MULABS_EXAMPLE/shelx.lis.gz
-share/doc/platon/TEST/PSICOR_EXAMPLE/old_s588a.ps
-share/doc/platon/TEST/PSICOR_EXAMPLE/s588a.hkl
-share/doc/platon/TEST/PSICOR_EXAMPLE/s588a.hkp
-share/doc/platon/TEST/PSICOR_EXAMPLE/s588a.ins
-share/doc/platon/TEST/PSICOR_EXAMPLE/s588a.lis
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/README.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/shelxl.hkl.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/shelxl.hkp.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/shelxl.lis.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/shelxl.res.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/shelxl.sqz.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/sqz.hkl.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/sqz.lis.gz
-share/doc/platon/TEST/SQUEEZE_EXAMPLE/sqz.res.gz
-share/doc/platon/README
-share/doc/platon/README.ADDSYM
-share/doc/platon/README.LEPAGE
-share/doc/platon/README.PLUTON
-share/doc/platon/VALIDATION.DOC
-share/doc/platon/azt.dat
-share/doc/platon/bucky.spf
-share/doc/platon/c476.spf
-share/doc/platon/c540.cart3d
-share/doc/platon/check.def
-share/doc/platon/cubane.spf
-share/doc/platon/cyto.spf
-share/doc/platon/ml.pdb
-share/doc/platon/s810c.cif
-share/doc/platon/s913a.res
-share/doc/platon/sucrose.spf
-share/doc/platon/platon_html.tar.gz
-@dirrm share/doc/platon/TEST/ABSORB_EXAMPLE
-@dirrm share/doc/platon/TEST/ABSTOMPA_EXAMPLE
-@dirrm share/doc/platon/TEST/ABSTOMPA_TEST
-@dirrm share/doc/platon/TEST/ADDSYM_EXAMPLE
-@dirrm share/doc/platon/TEST/ASYM_EXAMPLE
-@dirrm share/doc/platon/TEST/DELABS_EXAMPLE
-@dirrm share/doc/platon/TEST/MULABS_EXAMPLE
-@dirrm share/doc/platon/TEST/PSICOR_EXAMPLE
-@dirrm share/doc/platon/TEST/SQUEEZE_EXAMPLE
-@dirrm share/doc/platon/TEST
-@dirrm share/doc/platon
+%%DOCSDIR%%/TEST/ABSORB_EXAMPLE/s588a.hkl.gz
+%%DOCSDIR%%/TEST/ABSORB_EXAMPLE/s588a.hkp.gz
+%%DOCSDIR%%/TEST/ABSORB_EXAMPLE/s588a.ins
+%%DOCSDIR%%/TEST/ABSORB_EXAMPLE/s588a.lis
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s555b.hkl.gz
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s555b.hkp.gz
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s555b.ins
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s555b.lis.gz
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s588a.hkl.gz
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s588a.hkp.gz
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s588a.ins
+%%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE/s588a.lis.gz
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/README
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/abstest.hkl
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/abstest.hkp
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/abstest.ins
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/abstest.lis
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/stand.hkl
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/stand.hkp
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/stand.ins
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/stand.lis
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test1.hkl
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test1.hkp
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test1.ins
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test1.lis
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test2.hkl
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test2.hkp
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test2.ins
+%%DOCSDIR%%/TEST/ABSTOMPA_TEST/test2.lis
+%%DOCSDIR%%/TEST/ADDSYM_EXAMPLE/README
+%%DOCSDIR%%/TEST/ADDSYM_EXAMPLE/ex1.spf
+%%DOCSDIR%%/TEST/ADDSYM_EXAMPLE/ex2.ins
+%%DOCSDIR%%/TEST/ADDSYM_EXAMPLE/ex3.spf
+%%DOCSDIR%%/TEST/ASYM_EXAMPLE/README
+%%DOCSDIR%%/TEST/ASYM_EXAMPLE/asym.hkl.gz
+%%DOCSDIR%%/TEST/ASYM_EXAMPLE/asym.hkp.gz
+%%DOCSDIR%%/TEST/ASYM_EXAMPLE/asym.ins
+%%DOCSDIR%%/TEST/ASYM_EXAMPLE/asym.lis.gz
+%%DOCSDIR%%/TEST/DELABS_EXAMPLE/s588a.hkl.gz
+%%DOCSDIR%%/TEST/DELABS_EXAMPLE/s588a.hkp.gz
+%%DOCSDIR%%/TEST/DELABS_EXAMPLE/s588a.lis
+%%DOCSDIR%%/TEST/DELABS_EXAMPLE/s588a.res
+%%DOCSDIR%%/TEST/MULABS_EXAMPLE/shelx.hkl.gz
+%%DOCSDIR%%/TEST/MULABS_EXAMPLE/shelx.hkp.gz
+%%DOCSDIR%%/TEST/MULABS_EXAMPLE/shelx.ins.gz
+%%DOCSDIR%%/TEST/MULABS_EXAMPLE/shelx.lis.gz
+%%DOCSDIR%%/TEST/PSICOR_EXAMPLE/old_s588a.ps
+%%DOCSDIR%%/TEST/PSICOR_EXAMPLE/s588a.hkl
+%%DOCSDIR%%/TEST/PSICOR_EXAMPLE/s588a.hkp
+%%DOCSDIR%%/TEST/PSICOR_EXAMPLE/s588a.ins
+%%DOCSDIR%%/TEST/PSICOR_EXAMPLE/s588a.lis
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/README.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/shelxl.hkl.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/shelxl.hkp.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/shelxl.lis.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/shelxl.res.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/shelxl.sqz.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/sqz.hkl.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/sqz.lis.gz
+%%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE/sqz.res.gz
+%%DOCSDIR%%/README
+%%DOCSDIR%%/README.ADDSYM
+%%DOCSDIR%%/README.LEPAGE
+%%DOCSDIR%%/README.PLUTON
+%%DOCSDIR%%/VALIDATION.DOC
+%%DOCSDIR%%/azt.dat
+%%DOCSDIR%%/bucky.spf
+%%DOCSDIR%%/c476.spf
+%%DOCSDIR%%/c540.cart3d
+%%DOCSDIR%%/check.def
+%%DOCSDIR%%/cubane.spf
+%%DOCSDIR%%/cyto.spf
+%%DOCSDIR%%/ml.pdb
+%%DOCSDIR%%/s810c.cif
+%%DOCSDIR%%/s913a.res
+%%DOCSDIR%%/sucrose.spf
+%%DOCSDIR%%/platon_html.tar.gz
+@dirrm %%DOCSDIR%%/TEST/ABSORB_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/ABSTOMPA_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/ABSTOMPA_TEST
+@dirrm %%DOCSDIR%%/TEST/ADDSYM_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/ASYM_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/DELABS_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/MULABS_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/PSICOR_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE
+@dirrm %%DOCSDIR%%/TEST
+@dirrm %%DOCSDIR%%
diff --git a/biology/primer3/pkg-plist b/biology/primer3/pkg-plist
index 874dec84c976..a6e27b47b1d4 100644
--- a/biology/primer3/pkg-plist
+++ b/biology/primer3/pkg-plist
@@ -1,5 +1,5 @@
-%%PORTDOCS%%share/doc/primer3/README
-%%PORTDOCS%%share/doc/primer3/example
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/example
%%PORTDOCS%%share/examples/primer3/dpal_gen.pl
%%PORTDOCS%%share/examples/primer3/dpal_input
%%PORTDOCS%%share/examples/primer3/dpal_long_input
@@ -351,7 +351,7 @@ share/primer3/primer3_www_help.html
share/primer3/primer3_www_results.cgi
share/primer3/primer3_www_results_help.html
@dirrm share/primer3
-%%PORTDOCS%%@dirrm share/doc/primer3/
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/
%%PORTDOCS%%@dirrm share/examples/primer3/primer1_list_last
%%PORTDOCS%%@dirrm share/examples/primer3/primer_global_err
%%PORTDOCS%%@dirrm share/examples/primer3/primer_list_last
diff --git a/biology/psi88/pkg-plist b/biology/psi88/pkg-plist
index 1c5f1e9f5714..dc8966983621 100644
--- a/biology/psi88/pkg-plist
+++ b/biology/psi88/pkg-plist
@@ -9,22 +9,22 @@ bin/preplot
bin/rpsi1
bin/rpsi2
bin/rpsicon
-%%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
+%%PORTDOCS%%%%DOCSDIR%%/psi88.doc
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad634a.psi1
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad634a.psi2
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad634a.psicon
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad635a.psi1
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad635a.psi2
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad635a.psicon
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad636a.psi1
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad636a.psi2
+%%PORTDOCS%%%%DOCSDIR%%/examples/ad636a.psicon
+%%PORTDOCS%%%%DOCSDIR%%/examples/ch3cl.psi1
+%%PORTDOCS%%%%DOCSDIR%%/examples/ch3cl.psi2
+%%PORTDOCS%%%%DOCSDIR%%/examples/ch3cl.psicon
+%%PORTDOCS%%%%DOCSDIR%%/examples/test.psi1
+%%PORTDOCS%%%%DOCSDIR%%/examples/test.psi2
+%%PORTDOCS%%%%DOCSDIR%%/examples/test.psicon
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/examples
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/py-biopython/pkg-plist b/biology/py-biopython/pkg-plist
index 98efd0c43a67..71f0e6762633 100644
--- a/biology/py-biopython/pkg-plist
+++ b/biology/py-biopython/pkg-plist
@@ -188,34 +188,34 @@
%%PLIST_OMNIORB%%lib/%%PYTHON_VERSION%%/site-packages/BioCorba/types_idl.py
%%PLIST_OMNIORB%%lib/%%PYTHON_VERSION%%/site-packages/BioCorba/types_idl.pyc
%%PLIST_OMNIORB%%lib/%%PYTHON_VERSION%%/site-packages/BioCorba/types_idl.pyo
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/IntroPythonClient.pdf
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/IntroPythonClient.tex
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/IntroPythonServer.pdf
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/IntroPythonServer.tex
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/Tutorial.html
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/Tutorial.pdf
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/Tutorial.tex
-%%PORTDOCS%%%%PLIST_CORBA%%share/doc/biopython/BioCorba/Tutorial.txt
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/IntroPythonClient.pdf
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/IntroPythonClient.tex
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/IntroPythonServer.pdf
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/IntroPythonServer.tex
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/Tutorial.html
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/Tutorial.pdf
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/Tutorial.tex
+%%PORTDOCS%%%%PLIST_CORBA%%%%DOCSDIR%%/BioCorba/Tutorial.txt
%%PORTDOCS%%%%PLIST_CORBA%%share/examples/biopython/BioCorba/a_drought.gb
%%PORTDOCS%%%%PLIST_CORBA%%share/examples/biopython/BioCorba/collection_server.py
%%PORTDOCS%%%%PLIST_CORBA%%share/examples/biopython/BioCorba/genbank_client.py
%%PORTDOCS%%%%PLIST_CORBA%%share/examples/biopython/BioCorba/genbank_server.py
-%%PORTDOCS%%share/doc/biopython/Blast.txt
-%%PORTDOCS%%share/doc/biopython/Enzyme.txt
-%%PORTDOCS%%share/doc/biopython/Fasta.txt
-%%PORTDOCS%%share/doc/biopython/IntelliGenetics.txt
-%%PORTDOCS%%share/doc/biopython/InterPro.txt
-%%PORTDOCS%%share/doc/biopython/KEGG.txt
-%%PORTDOCS%%share/doc/biopython/Medline.txt
-%%PORTDOCS%%share/doc/biopython/Parser.txt
-%%PORTDOCS%%share/doc/biopython/Prosite.txt
-%%PORTDOCS%%share/doc/biopython/References.txt
-%%PORTDOCS%%share/doc/biopython/SwissProt.txt
-%%PORTDOCS%%share/doc/biopython/Tutorial.pdf
-%%PORTDOCS%%share/doc/biopython/Tutorial.tex
-%%PORTDOCS%%share/doc/biopython/Tutorial.txt
-%%PORTDOCS%%share/doc/biopython/make_api_docs.py
-%%PORTDOCS%%share/doc/biopython/metatool.txt
+%%PORTDOCS%%%%DOCSDIR%%/Blast.txt
+%%PORTDOCS%%%%DOCSDIR%%/Enzyme.txt
+%%PORTDOCS%%%%DOCSDIR%%/Fasta.txt
+%%PORTDOCS%%%%DOCSDIR%%/IntelliGenetics.txt
+%%PORTDOCS%%%%DOCSDIR%%/InterPro.txt
+%%PORTDOCS%%%%DOCSDIR%%/KEGG.txt
+%%PORTDOCS%%%%DOCSDIR%%/Medline.txt
+%%PORTDOCS%%%%DOCSDIR%%/Parser.txt
+%%PORTDOCS%%%%DOCSDIR%%/Prosite.txt
+%%PORTDOCS%%%%DOCSDIR%%/References.txt
+%%PORTDOCS%%%%DOCSDIR%%/SwissProt.txt
+%%PORTDOCS%%%%DOCSDIR%%/Tutorial.pdf
+%%PORTDOCS%%%%DOCSDIR%%/Tutorial.tex
+%%PORTDOCS%%%%DOCSDIR%%/Tutorial.txt
+%%PORTDOCS%%%%DOCSDIR%%/make_api_docs.py
+%%PORTDOCS%%%%DOCSDIR%%/metatool.txt
%%PORTDOCS%%share/examples/biopython/GenBank/check_output.py
%%PORTDOCS%%share/examples/biopython/GenBank/check_output_simple.py
%%PORTDOCS%%share/examples/biopython/GenBank/find_parser_problems.py
@@ -814,12 +814,12 @@ lib/%%PYTHON_VERSION%%/site-packages/Bio/utils.pyo
@dirrm lib/%%PYTHON_VERSION%%/site-packages/Bio/Align
@dirrm lib/%%PYTHON_VERSION%%/site-packages/Bio
%%PORTDOCS%%%%PLIST_CORBA%%@dirrm share/examples/biopython/BioCorba
-%%PORTDOCS%%%%PLIST_CORBA%%@dirrm share/doc/biopython/BioCorba
+%%PORTDOCS%%%%PLIST_CORBA%%@dirrm %%DOCSDIR%%/BioCorba
%%PORTDOCS%%@dirrm share/examples/biopython/xbbtools
%%PORTDOCS%%@dirrm share/examples/biopython/SeqGui
%%PORTDOCS%%@dirrm share/examples/biopython/GenBank
%%PORTDOCS%%@dirrm share/examples/biopython
-%%PORTDOCS%%@dirrm share/doc/biopython
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
%%PLIST_OMNIORB%%@dirrm lib/%%PYTHON_VERSION%%/site-packages/BioCorba/bsane__POA/seqcore
%%PLIST_OMNIORB%%@dirrm lib/%%PYTHON_VERSION%%/site-packages/BioCorba/bsane__POA/comparison
%%PLIST_OMNIORB%%@dirrm lib/%%PYTHON_VERSION%%/site-packages/BioCorba/bsane__POA/collection
diff --git a/biology/recombine/pkg-plist b/biology/recombine/pkg-plist
index 8c01fcc4b69c..3a78fcf0ba0e 100644
--- a/biology/recombine/pkg-plist
+++ b/biology/recombine/pkg-plist
@@ -1,5 +1,5 @@
bin/filetran
bin/recombine
-%%PORTDOCS%%share/doc/recombine/rec_errors.doc
-%%PORTDOCS%%share/doc/recombine/recombine.doc
-%%PORTDOCS%%@dirrm share/doc/recombine
+%%PORTDOCS%%%%DOCSDIR%%/rec_errors.doc
+%%PORTDOCS%%%%DOCSDIR%%/recombine.doc
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/seqio/pkg-plist b/biology/seqio/pkg-plist
index 4e929f3152e4..8884649c3107 100644
--- a/biology/seqio/pkg-plist
+++ b/biology/seqio/pkg-plist
@@ -3,30 +3,30 @@ bin/grepseq
bin/idxseq
bin/typeseq
bin/wcseq
-%%PORTDOCS%%share/doc/seqio/html/bigaln_example.html
-%%PORTDOCS%%share/doc/seqio/html/examples_doc.html
-%%PORTDOCS%%share/doc/seqio/html/fmtseq_doc.html
-%%PORTDOCS%%share/doc/seqio/html/idxseq_doc.html
-%%PORTDOCS%%share/doc/seqio/html/seqio.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_bioseq.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_changes.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_doc.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_format.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_progr.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_qref.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_readme.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_toc.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_todo.html
-%%PORTDOCS%%share/doc/seqio/html/seqio_user.html
-%%PORTDOCS%%share/doc/seqio/bioseq.txt
-%%PORTDOCS%%share/doc/seqio/examples.doc
-%%PORTDOCS%%share/doc/seqio/fmtseq.doc
-%%PORTDOCS%%share/doc/seqio/format.doc
-%%PORTDOCS%%share/doc/seqio/idxseq.doc
-%%PORTDOCS%%share/doc/seqio/programr.doc
-%%PORTDOCS%%share/doc/seqio/quickref.doc
-%%PORTDOCS%%share/doc/seqio/seqio.doc
-%%PORTDOCS%%share/doc/seqio/user.doc
+%%PORTDOCS%%%%DOCSDIR%%/html/bigaln_example.html
+%%PORTDOCS%%%%DOCSDIR%%/html/examples_doc.html
+%%PORTDOCS%%%%DOCSDIR%%/html/fmtseq_doc.html
+%%PORTDOCS%%%%DOCSDIR%%/html/idxseq_doc.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_bioseq.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_changes.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_doc.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_format.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_progr.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_qref.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_readme.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_toc.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_todo.html
+%%PORTDOCS%%%%DOCSDIR%%/html/seqio_user.html
+%%PORTDOCS%%%%DOCSDIR%%/bioseq.txt
+%%PORTDOCS%%%%DOCSDIR%%/examples.doc
+%%PORTDOCS%%%%DOCSDIR%%/fmtseq.doc
+%%PORTDOCS%%%%DOCSDIR%%/format.doc
+%%PORTDOCS%%%%DOCSDIR%%/idxseq.doc
+%%PORTDOCS%%%%DOCSDIR%%/programr.doc
+%%PORTDOCS%%%%DOCSDIR%%/quickref.doc
+%%PORTDOCS%%%%DOCSDIR%%/seqio.doc
+%%PORTDOCS%%%%DOCSDIR%%/user.doc
%%PORTDOCS%%share/examples/seqio/example1.c
%%PORTDOCS%%share/examples/seqio/example2.c
%%PORTDOCS%%share/examples/seqio/example3.c
@@ -34,6 +34,6 @@ bin/wcseq
%%PORTDOCS%%share/examples/seqio/seqio.c
%%PORTDOCS%%share/examples/seqio/seqio.h
%%PORTDOCS%%share/examples/seqio/Makefile
-%%PORTDOCS%%@dirrm share/doc/seqio/html
-%%PORTDOCS%%@dirrm share/doc/seqio
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/html
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
%%PORTDOCS%%@dirrm share/examples/seqio
diff --git a/biology/tRNAscan-SE/pkg-plist b/biology/tRNAscan-SE/pkg-plist
index 06992dc3d94b..3ebf814cc5c0 100644
--- a/biology/tRNAscan-SE/pkg-plist
+++ b/biology/tRNAscan-SE/pkg-plist
@@ -22,5 +22,5 @@ share/tRNAscan-SE/ESELC.cm
share/tRNAscan-SE/Dsignal
share/tRNAscan-SE/gcode.ystmito
@dirrm share/tRNAscan-SE
-%%PORTDOCS%%share/doc/tRNAscan-SE/Manual.ps
-%%PORTDOCS%%@dirrm share/doc/tRNAscan-SE
+%%PORTDOCS%%%%DOCSDIR%%/Manual.ps
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/t_coffee/pkg-plist b/biology/t_coffee/pkg-plist
index c57ecd5e34fe..1100b4a356bb 100644
--- a/biology/t_coffee/pkg-plist
+++ b/biology/t_coffee/pkg-plist
@@ -1,9 +1,9 @@
-%%PORTDOCS%%share/doc/t_coffee/README4T-COFFEE
-%%PORTDOCS%%share/doc/t_coffee/t_coffee.pdf
-%%PORTDOCS%%share/doc/t_coffee/t_coffee_doc.doc
-%%PORTDOCS%%share/doc/t_coffee/t_coffee_doc.html
-%%PORTDOCS%%share/doc/t_coffee/t_coffee_doc.pdf
-%%PORTDOCS%%share/doc/t_coffee/t_coffee_doc.ps
+%%PORTDOCS%%%%DOCSDIR%%/README4T-COFFEE
+%%PORTDOCS%%%%DOCSDIR%%/t_coffee.pdf
+%%PORTDOCS%%%%DOCSDIR%%/t_coffee_doc.doc
+%%PORTDOCS%%%%DOCSDIR%%/t_coffee_doc.html
+%%PORTDOCS%%%%DOCSDIR%%/t_coffee_doc.pdf
+%%PORTDOCS%%%%DOCSDIR%%/t_coffee_doc.ps
%%PORTDOCS%%share/examples/t_coffee/seq/1aab_ref1.pep
%%PORTDOCS%%share/examples/t_coffee/seq/1aboA_ref1.pep
%%PORTDOCS%%share/examples/t_coffee/seq/1aboA_ref2.pep
@@ -302,4 +302,4 @@ bin/t_coffee
%%PORTDOCS%%@dirrm share/examples/t_coffee/tc_aln
%%PORTDOCS%%@dirrm share/examples/t_coffee/seq
%%PORTDOCS%%@dirrm share/examples/t_coffee
-%%PORTDOCS%%@dirrm share/doc/t_coffee
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/biology/tinker/pkg-plist b/biology/tinker/pkg-plist
index 3a5deee9f83c..bb43683e15ac 100644
--- a/biology/tinker/pkg-plist
+++ b/biology/tinker/pkg-plist
@@ -50,26 +50,26 @@ bin/xyzedit
bin/xyzint
bin/xyzpdb
bin/xyzsybyl
-%%PORTDOCS%%share/doc/tinker/README
-%%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-bind.pdf
-%%PORTDOCS%%share/doc/tinker/logo-bind.ps.gz
-%%PORTDOCS%%share/doc/tinker/logo.pdf
-%%PORTDOCS%%share/doc/tinker/logo.ps.gz
-%%PORTDOCS%%share/doc/tinker/release-3.2
-%%PORTDOCS%%share/doc/tinker/release-3.6
-%%PORTDOCS%%share/doc/tinker/release-3.7
-%%PORTDOCS%%share/doc/tinker/release-3.8
-%%PORTDOCS%%share/doc/tinker/release-3.9
-%%PORTDOCS%%share/doc/tinker/release-4.0
-%%PORTDOCS%%share/doc/tinker/summary.pdf
-%%PORTDOCS%%share/doc/tinker/summary.ps
-%%PORTDOCS%%share/doc/tinker/summary.txt
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/guide.pdf
+%%PORTDOCS%%%%DOCSDIR%%/guide.ps.gz
+%%PORTDOCS%%%%DOCSDIR%%/guide.txt
+%%PORTDOCS%%%%DOCSDIR%%/license.pdf
+%%PORTDOCS%%%%DOCSDIR%%/license.ps
+%%PORTDOCS%%%%DOCSDIR%%/license.txt
+%%PORTDOCS%%%%DOCSDIR%%/logo-bind.pdf
+%%PORTDOCS%%%%DOCSDIR%%/logo-bind.ps.gz
+%%PORTDOCS%%%%DOCSDIR%%/logo.pdf
+%%PORTDOCS%%%%DOCSDIR%%/logo.ps.gz
+%%PORTDOCS%%%%DOCSDIR%%/release-3.2
+%%PORTDOCS%%%%DOCSDIR%%/release-3.6
+%%PORTDOCS%%%%DOCSDIR%%/release-3.7
+%%PORTDOCS%%%%DOCSDIR%%/release-3.8
+%%PORTDOCS%%%%DOCSDIR%%/release-3.9
+%%PORTDOCS%%%%DOCSDIR%%/release-4.0
+%%PORTDOCS%%%%DOCSDIR%%/summary.pdf
+%%PORTDOCS%%%%DOCSDIR%%/summary.ps
+%%PORTDOCS%%%%DOCSDIR%%/summary.txt
%%PORTDOCS%%share/examples/tinker/README
%%PORTDOCS%%share/examples/tinker/anion.dat
%%PORTDOCS%%share/examples/tinker/anion.dyn0
@@ -437,7 +437,7 @@ share/tinker/params/water.prm
%%PORTDOCS%%share/tinker/test/white.key
%%PORTDOCS%%share/tinker/test/white.xyz
share/tinker/tinker.txt
-%%PORTDOCS%%@dirrm share/doc/tinker
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
%%PORTDOCS%%@dirrm share/examples/tinker
%%PORTDOCS%%@dirrm share/tinker/bench
@dirrm share/tinker/params
diff --git a/biology/wise/pkg-plist b/biology/wise/pkg-plist
index 573ea88e9d14..966e021874c6 100644
--- a/biology/wise/pkg-plist
+++ b/biology/wise/pkg-plist
@@ -1,15 +1,15 @@
bin/genomewise
-%%PORTDOCS%%share/doc/wise/README
-%%PORTDOCS%%share/doc/wise/apiend.tex
-%%PORTDOCS%%share/doc/wise/appendix.tex
-%%PORTDOCS%%share/doc/wise/dynamite.tex
-%%PORTDOCS%%share/doc/wise/genewise21.eps
-%%PORTDOCS%%share/doc/wise/genewise6.eps
-%%PORTDOCS%%share/doc/wise/gettex.pl
-%%PORTDOCS%%share/doc/wise/makefile
-%%PORTDOCS%%share/doc/wise/wise2.tex
-%%PORTDOCS%%share/doc/wise/wise2api.tex
-%%PORTDOCS%%share/doc/wise/wise3arch.tex
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/apiend.tex
+%%PORTDOCS%%%%DOCSDIR%%/appendix.tex
+%%PORTDOCS%%%%DOCSDIR%%/dynamite.tex
+%%PORTDOCS%%%%DOCSDIR%%/genewise21.eps
+%%PORTDOCS%%%%DOCSDIR%%/genewise6.eps
+%%PORTDOCS%%%%DOCSDIR%%/gettex.pl
+%%PORTDOCS%%%%DOCSDIR%%/makefile
+%%PORTDOCS%%%%DOCSDIR%%/wise2.tex
+%%PORTDOCS%%%%DOCSDIR%%/wise2api.tex
+%%PORTDOCS%%%%DOCSDIR%%/wise3arch.tex
%%PORTDOCS%%share/examples/wise/README
%%PORTDOCS%%share/examples/wise/db.hmm
%%PORTDOCS%%share/examples/wise/hn_est.fa
@@ -56,6 +56,6 @@ bin/genewise
bin/genewisedb
bin/psw
bin/pswdb
-%%PORTDOCS%%@dirrm share/doc/wise
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
%%PORTDOCS%%@dirrm share/examples/wise
@dirrm share/wise
diff --git a/biology/xmolwt/pkg-plist b/biology/xmolwt/pkg-plist
index d9414dad37dd..2d16b3c96b17 100644
--- a/biology/xmolwt/pkg-plist
+++ b/biology/xmolwt/pkg-plist
@@ -1,11 +1,11 @@
bin/gmolwt
bin/molwt
-%%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
+%%PORTDOCS%%%%DOCSDIR%%/Howtouse.jp
+%%PORTDOCS%%%%DOCSDIR%%/Readme
+%%PORTDOCS%%%%DOCSDIR%%/Xmolwt
+%%PORTDOCS%%%%DOCSDIR%%/dot.gtkrc
+%%PORTDOCS%%%%DOCSDIR%%/gmolwt.gif
+%%PORTDOCS%%%%DOCSDIR%%/xmolwt-e.html
+%%PORTDOCS%%%%DOCSDIR%%/xmolwt.gif
+%%PORTDOCS%%%%DOCSDIR%%/xmolwt.html
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/cad/atlc/pkg-plist b/cad/atlc/pkg-plist
index 68d2551a7f7a..b1c0875c3c99 100644
--- a/cad/atlc/pkg-plist
+++ b/cad/atlc/pkg-plist
@@ -8,129 +8,129 @@ bin/rect_cen_in_rect
bin/rect_in_circ
bin/rect_in_rect
bin/sym_strip
-%%PORTDOCS%%share/doc/atlc/FAQ.html
-%%PORTDOCS%%share/doc/atlc/IMPORTANT.html
-%%PORTDOCS%%share/doc/atlc/accuracy.html
-%%PORTDOCS%%share/doc/atlc/atlc.1.html
-%%PORTDOCS%%share/doc/atlc/banner.html
-%%PORTDOCS%%share/doc/atlc/bmp.html
-%%PORTDOCS%%share/doc/atlc/building.html
-%%PORTDOCS%%share/doc/atlc/circ_in_circ.1.html
-%%PORTDOCS%%share/doc/atlc/circ_in_rect.1.html
-%%PORTDOCS%%share/doc/atlc/colours.html
-%%PORTDOCS%%share/doc/atlc/couplers.html
-%%PORTDOCS%%share/doc/atlc/errors.html
-%%PORTDOCS%%share/doc/atlc/examples.html
-%%PORTDOCS%%share/doc/atlc/fileformat.html
-%%PORTDOCS%%share/doc/atlc/frontpage.html
-%%PORTDOCS%%share/doc/atlc/generators.html
-%%PORTDOCS%%share/doc/atlc/index.html
-%%PORTDOCS%%share/doc/atlc/index2.html
-%%PORTDOCS%%share/doc/atlc/jpgs/000000.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/0000ff.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/00ff00.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/00ffff.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/1aefb3.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/50.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/696969.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/8235ef.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/8e8e8e.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/aliased.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/bc7f60.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/central.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/centred.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/cir.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.Er.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.U.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.V.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coax2.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coaxial1.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/cop1.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/coupler.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/d5a04d.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/dcdcdc.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/eccentric_coax.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/eccentric_coax2.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/efcc1a.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/elliptical.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/enclosed-microstrip.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ff0000.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ff0001.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ff00ff.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ffcaca.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ffff00.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ffffff.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/full-size.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.Er.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.U.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.V.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/multi-dielectric.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/not-aliased.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/off-centre.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/off-centre2.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.Er.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.U.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.V.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/pcb2.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/rect.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/rect2.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/rect9.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ric.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/symmetrical_strip.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/test.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/too-small.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.Er.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.U.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.V.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire2.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/twin-wire2.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.Er.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.U.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.V.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/ushape.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd-dark.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd-dark.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd-dark.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd-light.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd-light.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd-light.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.E.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.Er.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.Ex.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.Ey.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.U.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.V.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/very-odd.jpg
-%%PORTDOCS%%share/doc/atlc/jpgs/wide.jpg
-%%PORTDOCS%%share/doc/atlc/man-pages.html
-%%PORTDOCS%%share/doc/atlc/not_yet.html
-%%PORTDOCS%%share/doc/atlc/options.html
-%%PORTDOCS%%share/doc/atlc/readbin.1.html
-%%PORTDOCS%%share/doc/atlc/rect_cen_in_rect.1.html
-%%PORTDOCS%%share/doc/atlc/rect_in_circ.1.html
-%%PORTDOCS%%share/doc/atlc/rect_in_rect.1.html
-%%PORTDOCS%%share/doc/atlc/rect_in_rect.html
-%%PORTDOCS%%share/doc/atlc/sym_strip.1.html
-%%PORTDOCS%%share/doc/atlc/todo.html
-%%PORTDOCS%%share/doc/atlc/tutorial.html
-%%PORTDOCS%%share/doc/atlc/using.html
+%%PORTDOCS%%%%DOCSDIR%%/FAQ.html
+%%PORTDOCS%%%%DOCSDIR%%/IMPORTANT.html
+%%PORTDOCS%%%%DOCSDIR%%/accuracy.html
+%%PORTDOCS%%%%DOCSDIR%%/atlc.1.html
+%%PORTDOCS%%%%DOCSDIR%%/banner.html
+%%PORTDOCS%%%%DOCSDIR%%/bmp.html
+%%PORTDOCS%%%%DOCSDIR%%/building.html
+%%PORTDOCS%%%%DOCSDIR%%/circ_in_circ.1.html
+%%PORTDOCS%%%%DOCSDIR%%/circ_in_rect.1.html
+%%PORTDOCS%%%%DOCSDIR%%/colours.html
+%%PORTDOCS%%%%DOCSDIR%%/couplers.html
+%%PORTDOCS%%%%DOCSDIR%%/errors.html
+%%PORTDOCS%%%%DOCSDIR%%/examples.html
+%%PORTDOCS%%%%DOCSDIR%%/fileformat.html
+%%PORTDOCS%%%%DOCSDIR%%/frontpage.html
+%%PORTDOCS%%%%DOCSDIR%%/generators.html
+%%PORTDOCS%%%%DOCSDIR%%/index.html
+%%PORTDOCS%%%%DOCSDIR%%/index2.html
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/000000.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/0000ff.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/00ff00.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/00ffff.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/1aefb3.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/50.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/696969.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/8235ef.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/8e8e8e.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/aliased.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/bc7f60.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/central.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/centred.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/cir.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.Er.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.U.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.V.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coax2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coaxial1.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/cop1.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/coupler.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/d5a04d.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/dcdcdc.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/eccentric_coax.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/eccentric_coax2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/efcc1a.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/elliptical.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/enclosed-microstrip.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ff0000.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ff0001.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ff00ff.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ffcaca.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ffff00.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ffffff.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/full-size.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.Er.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.U.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.V.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/multi-dielectric.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/not-aliased.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/off-centre.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/off-centre2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.Er.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.U.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.V.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/pcb2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/rect.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/rect2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/rect9.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ric.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/symmetrical_strip.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/test.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/too-small.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.Er.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.U.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.V.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire2.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/twin-wire2.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.Er.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.U.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.V.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/ushape.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd-dark.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd-dark.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd-dark.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd-light.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd-light.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd-light.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.E.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.Er.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.Ex.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.Ey.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.U.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.V.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/very-odd.jpg
+%%PORTDOCS%%%%DOCSDIR%%/jpgs/wide.jpg
+%%PORTDOCS%%%%DOCSDIR%%/man-pages.html
+%%PORTDOCS%%%%DOCSDIR%%/not_yet.html
+%%PORTDOCS%%%%DOCSDIR%%/options.html
+%%PORTDOCS%%%%DOCSDIR%%/readbin.1.html
+%%PORTDOCS%%%%DOCSDIR%%/rect_cen_in_rect.1.html
+%%PORTDOCS%%%%DOCSDIR%%/rect_in_circ.1.html
+%%PORTDOCS%%%%DOCSDIR%%/rect_in_rect.1.html
+%%PORTDOCS%%%%DOCSDIR%%/rect_in_rect.html
+%%PORTDOCS%%%%DOCSDIR%%/sym_strip.1.html
+%%PORTDOCS%%%%DOCSDIR%%/todo.html
+%%PORTDOCS%%%%DOCSDIR%%/tutorial.html
+%%PORTDOCS%%%%DOCSDIR%%/using.html
share/examples/atlc/13inner_22outer_coax.bmp
share/examples/atlc/aliased.bmp
share/examples/atlc/an_odd_er.bmp
@@ -169,5 +169,5 @@ share/examples/atlc/ushape.bmp
share/examples/atlc/very-odd.bmp
share/examples/atlc/wide-9pixel.bmp
@dirrm share/examples/atlc
-%%PORTDOCS%%@dirrm share/doc/atlc/jpgs
-%%PORTDOCS%%@dirrm share/doc/atlc
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/jpgs
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/cad/cascade/pkg-plist b/cad/cascade/pkg-plist
index 11a29259c2aa..a2e831c4826c 100644
--- a/cad/cascade/pkg-plist
+++ b/cad/cascade/pkg-plist
@@ -1,10 +1,10 @@
bin/cascade
-%%PORTDOCS%%share/doc/cascade/ex1.gif
-%%PORTDOCS%%share/doc/cascade/index.html
+%%PORTDOCS%%%%DOCSDIR%%/ex1.gif
+%%PORTDOCS%%%%DOCSDIR%%/index.html
share/emacs/site-lisp/cascade-mode.el
share/examples/cascade/README.examples
share/examples/cascade/ex1.cas
share/examples/cascade/ex1.gif
share/examples/cascade/ex1.out
@dirrm share/examples/cascade
-%%PORTDOCS%%@dirrm share/doc/cascade
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/cad/gtkwave/pkg-plist b/cad/gtkwave/pkg-plist
index 4453d7ca9826..d7779af461a4 100644
--- a/cad/gtkwave/pkg-plist
+++ b/cad/gtkwave/pkg-plist
@@ -10,31 +10,31 @@ lib/gtkwave/reader_out.so.0
lib/gtkwave/reader_vcd.a
lib/gtkwave/reader_vcd.so
lib/gtkwave/reader_vcd.so.0
-%%PORTDOCS%%share/doc/gtkwave/data_format.png
-%%PORTDOCS%%share/doc/gtkwave/edit_menu.png
-%%PORTDOCS%%share/doc/gtkwave/file_menu.png
-%%PORTDOCS%%share/doc/gtkwave/gtkwave.html
-%%PORTDOCS%%share/doc/gtkwave/help_menu.png
-%%PORTDOCS%%share/doc/gtkwave/hierarchy.png
-%%PORTDOCS%%share/doc/gtkwave/markers_menu.png
-%%PORTDOCS%%share/doc/gtkwave/search_menu.png
-%%PORTDOCS%%share/doc/gtkwave/time_menu.png
-%%PORTDOCS%%share/doc/gtkwave/view_menu.png
-%%PORTDOCS%%share/doc/gtkwave/w.ps
-%%PORTDOCS%%share/doc/gtkwave/w1.png
-%%PORTDOCS%%share/doc/gtkwave/w10.png
-%%PORTDOCS%%share/doc/gtkwave/w11.png
-%%PORTDOCS%%share/doc/gtkwave/w12.png
-%%PORTDOCS%%share/doc/gtkwave/w13.png
-%%PORTDOCS%%share/doc/gtkwave/w3.png
-%%PORTDOCS%%share/doc/gtkwave/w4.png
-%%PORTDOCS%%share/doc/gtkwave/w5.png
-%%PORTDOCS%%share/doc/gtkwave/w6.png
-%%PORTDOCS%%share/doc/gtkwave/w7.png
-%%PORTDOCS%%share/doc/gtkwave/w8.png
-%%PORTDOCS%%share/doc/gtkwave/w9.png
-%%PORTDOCS%%share/doc/gtkwave/wps.png
-%%PORTDOCS%%share/doc/gtkwave/zoom_submenu.png
+%%PORTDOCS%%%%DOCSDIR%%/data_format.png
+%%PORTDOCS%%%%DOCSDIR%%/edit_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/file_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/gtkwave.html
+%%PORTDOCS%%%%DOCSDIR%%/help_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/hierarchy.png
+%%PORTDOCS%%%%DOCSDIR%%/markers_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/search_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/time_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/view_menu.png
+%%PORTDOCS%%%%DOCSDIR%%/w.ps
+%%PORTDOCS%%%%DOCSDIR%%/w1.png
+%%PORTDOCS%%%%DOCSDIR%%/w10.png
+%%PORTDOCS%%%%DOCSDIR%%/w11.png
+%%PORTDOCS%%%%DOCSDIR%%/w12.png
+%%PORTDOCS%%%%DOCSDIR%%/w13.png
+%%PORTDOCS%%%%DOCSDIR%%/w3.png
+%%PORTDOCS%%%%DOCSDIR%%/w4.png
+%%PORTDOCS%%%%DOCSDIR%%/w5.png
+%%PORTDOCS%%%%DOCSDIR%%/w6.png
+%%PORTDOCS%%%%DOCSDIR%%/w7.png
+%%PORTDOCS%%%%DOCSDIR%%/w8.png
+%%PORTDOCS%%%%DOCSDIR%%/w9.png
+%%PORTDOCS%%%%DOCSDIR%%/wps.png
+%%PORTDOCS%%%%DOCSDIR%%/zoom_submenu.png
%%PORTDOCS%%share/examples/gtkwave/agonynan_bccom.vcd.gz
%%PORTDOCS%%share/examples/gtkwave/pci.vcd.gz
%%PORTDOCS%%share/examples/gtkwave/simple.vcd
@@ -63,5 +63,5 @@ share/gtkwave/pixmaps/vcd_mime.xpm
@dirrm share/gtkwave/pixmaps
@dirrm share/gtkwave
%%PORTDOCS%%@dirrm share/examples/gtkwave
-%%PORTDOCS%%@dirrm share/doc/gtkwave
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
@dirrm lib/gtkwave
diff --git a/cad/mars/pkg-plist b/cad/mars/pkg-plist
index 95a3ad02a537..e70dd8905bbf 100644
--- a/cad/mars/pkg-plist
+++ b/cad/mars/pkg-plist
@@ -1,8 +1,8 @@
bin/mars
-%%PORTDOCS%%share/doc/mars/proman/prog.ps
-%%PORTDOCS%%share/doc/mars/usrman/user.ps
-%%PORTDOCS%%share/doc/mars/motifman/Xmotif.ps
-%%PORTDOCS%%@dirrm share/doc/mars/proman
-%%PORTDOCS%%@dirrm share/doc/mars/usrman
-%%PORTDOCS%%@dirrm share/doc/mars/motifman
-%%PORTDOCS%%@dirrm share/doc/mars
+%%PORTDOCS%%%%DOCSDIR%%/proman/prog.ps
+%%PORTDOCS%%%%DOCSDIR%%/usrman/user.ps
+%%PORTDOCS%%%%DOCSDIR%%/motifman/Xmotif.ps
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/proman
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/usrman
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/motifman
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/cad/pcb/pkg-plist b/cad/pcb/pkg-plist
index d6c926de0415..c4750b372f1e 100644
--- a/cad/pcb/pkg-plist
+++ b/cad/pcb/pkg-plist
@@ -45,10 +45,10 @@ lib/pcb/m4/to.inc
@unexec install-info --delete %D/info/pcb.info %D/info/dir
info/pcb.info
@exec install-info --section="Utilities" --entry="* PCB: (pcb). Interactive printed circuit board layout system for X11" %D/info/pcb.info %D/info/dir
-share/doc/pcb/index.html
-share/doc/pcb/pcb.html
-share/doc/pcb/pcb.ps
-share/doc/pcb/refcard.ps
-@dirrm share/doc/pcb
+%%DOCSDIR%%/index.html
+%%DOCSDIR%%/pcb.html
+%%DOCSDIR%%/pcb.ps
+%%DOCSDIR%%/refcard.ps
+@dirrm %%DOCSDIR%%
@dirrm lib/pcb/m4
@dirrm lib/pcb
diff --git a/cad/sceptre/pkg-plist b/cad/sceptre/pkg-plist
index eb55af15093a..d06537b2b91b 100644
--- a/cad/sceptre/pkg-plist
+++ b/cad/sceptre/pkg-plist
@@ -10,6 +10,6 @@ lib/libx2.a
lib/libx3.a
lib/usrlib.a
lib/modellib.dat
-%%PORTDOCS%%share/doc/sceptre/doc_en.pdf
-%%PORTDOCS%%share/doc/sceptre/doc_ger.pdf
-%%PORTDOCS%%@dirrm share/doc/sceptre
+%%PORTDOCS%%%%DOCSDIR%%/doc_en.pdf
+%%PORTDOCS%%%%DOCSDIR%%/doc_ger.pdf
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/gfax/pkg-plist b/comms/gfax/pkg-plist
index f4fa1b403872..3f7cd177386c 100644
--- a/comms/gfax/pkg-plist
+++ b/comms/gfax/pkg-plist
@@ -19,12 +19,12 @@ lib/gfax/prefs_ui.py
lib/gfax/setup.glade
lib/gfax/ui.py
lib/gfax/uninstall.sh
-%%PORTDOCS%%share/doc/gfax/AUTHORS
-%%PORTDOCS%%share/doc/gfax/COPYING
-%%PORTDOCS%%share/doc/gfax/Changelog
-%%PORTDOCS%%share/doc/gfax/HACKING
-%%PORTDOCS%%share/doc/gfax/INSTALL
-%%PORTDOCS%%share/doc/gfax/TODO
+%%PORTDOCS%%%%DOCSDIR%%/AUTHORS
+%%PORTDOCS%%%%DOCSDIR%%/COPYING
+%%PORTDOCS%%%%DOCSDIR%%/Changelog
+%%PORTDOCS%%%%DOCSDIR%%/HACKING
+%%PORTDOCS%%%%DOCSDIR%%/INSTALL
+%%PORTDOCS%%%%DOCSDIR%%/TODO
share/gnome/apps/Applications/gfax.desktop
share/gnome/ximian/Programs/Utilities/gfax.desktop
@dirrm share/gnome/ximian/Programs/Utilities
@@ -33,6 +33,6 @@ share/gnome/ximian/Programs/Utilities/gfax.desktop
@dirrm share/gnome/apps/Applications
@dirrm share/gnome/apps
@dirrm share/gnome
-%%PORTDOCS%%share/doc/gfax
+%%PORTDOCS%%%%DOCSDIR%%
@dirrm lib/gfax/pixmaps
@dirrm lib/gfax
diff --git a/comms/gkermit/pkg-plist b/comms/gkermit/pkg-plist
index e54c8499048d..43a1fb1a6de5 100644
--- a/comms/gkermit/pkg-plist
+++ b/comms/gkermit/pkg-plist
@@ -1,3 +1,3 @@
bin/gkermit
-share/doc/gkermit/gkermit.txt
-@dirrm share/doc/gkermit
+%%DOCSDIR%%/gkermit.txt
+@dirrm %%DOCSDIR%%
diff --git a/comms/gnokii/pkg-plist b/comms/gnokii/pkg-plist
index c1081f98cee7..ab77886b4f5f 100644
--- a/comms/gnokii/pkg-plist
+++ b/comms/gnokii/pkg-plist
@@ -24,55 +24,55 @@ lib/libgnokii.so.1
lib/pkgconfig/gnokii.pc
sbin/gnokiid
sbin/mgnokiidev
-%%PORTDOCS%%share/doc/gnokii/Bugs
-%%PORTDOCS%%share/doc/gnokii/CREDITS
-%%PORTDOCS%%share/doc/gnokii/DataCalls-QuickStart
-%%PORTDOCS%%share/doc/gnokii/README
-%%PORTDOCS%%share/doc/gnokii/README-2110
-%%PORTDOCS%%share/doc/gnokii/README-3810
-%%PORTDOCS%%share/doc/gnokii/README-6110
-%%PORTDOCS%%share/doc/gnokii/README-6510
-%%PORTDOCS%%share/doc/gnokii/README-7110
-%%PORTDOCS%%share/doc/gnokii/README-MacOSX
-%%PORTDOCS%%share/doc/gnokii/README-WIN32
-%%PORTDOCS%%share/doc/gnokii/README-dancall
-%%PORTDOCS%%share/doc/gnokii/README-ericsson
-%%PORTDOCS%%share/doc/gnokii/README-siemens
-%%PORTDOCS%%share/doc/gnokii/README.libsms
-%%PORTDOCS%%share/doc/gnokii/gettext-howto
-%%PORTDOCS%%share/doc/gnokii/gnokii-IrDA-Linux
-%%PORTDOCS%%share/doc/gnokii/gnokii-hackers-howto
-%%PORTDOCS%%share/doc/gnokii/gnokii-ir-howto
-%%PORTDOCS%%share/doc/gnokii/logos.txt
-%%PORTDOCS%%share/doc/gnokii/packaging-howto
-%%PORTDOCS%%share/doc/gnokii/ringtones.txt
-%%PORTDOCS%%share/doc/gnokii/sample/gnokiirc
-%%PORTDOCS%%share/doc/gnokii/sample/logo/bronto.xpm
-%%PORTDOCS%%share/doc/gnokii/sample/logo/gnokii.xpm
-%%PORTDOCS%%share/doc/gnokii/sample/logo/gnokiiop.xpm
-%%PORTDOCS%%share/doc/gnokii/sample/logo/horse.xpm
-%%PORTDOCS%%share/doc/gnokii/sample/logo/horse2.xpm
-%%PORTDOCS%%share/doc/gnokii/sample/logo/pacman.xpm
-%%PORTDOCS%%share/doc/gnokii/sample/magic
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/cimd-connect
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/options
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/pap-secrets
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/ppp-6210-modem
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/ppp-FILES
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/ppp-gnokii
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/ppp-hscsd
-%%PORTDOCS%%share/doc/gnokii/sample/ppp/ppp-on
-%%PORTDOCS%%share/doc/gnokii/sample/ringtone/star.imelody
-%%PORTDOCS%%share/doc/gnokii/sample/ringtone/star.rtttl
-%%PORTDOCS%%share/doc/gnokii/sample/vCalendar/test.vcs
-%%PORTDOCS%%@dirrm share/doc/gnokii/sample/logo
-%%PORTDOCS%%@dirrm share/doc/gnokii/sample/ringtone
-%%PORTDOCS%%@dirrm share/doc/gnokii/sample/vCalendar
-%%PORTDOCS%%@dirrm share/doc/gnokii/sample/vCard
-%%PORTDOCS%%@dirrm share/doc/gnokii/sample/ppp
-%%PORTDOCS%%@dirrm share/doc/gnokii/sample
-%%PORTDOCS%%@dirrm share/doc/gnokii
-%%PORTDOCS%%@exec mkdir -m 755 %D/share/doc/gnokii/sample/vCard
+%%PORTDOCS%%%%DOCSDIR%%/Bugs
+%%PORTDOCS%%%%DOCSDIR%%/CREDITS
+%%PORTDOCS%%%%DOCSDIR%%/DataCalls-QuickStart
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/README-2110
+%%PORTDOCS%%%%DOCSDIR%%/README-3810
+%%PORTDOCS%%%%DOCSDIR%%/README-6110
+%%PORTDOCS%%%%DOCSDIR%%/README-6510
+%%PORTDOCS%%%%DOCSDIR%%/README-7110
+%%PORTDOCS%%%%DOCSDIR%%/README-MacOSX
+%%PORTDOCS%%%%DOCSDIR%%/README-WIN32
+%%PORTDOCS%%%%DOCSDIR%%/README-dancall
+%%PORTDOCS%%%%DOCSDIR%%/README-ericsson
+%%PORTDOCS%%%%DOCSDIR%%/README-siemens
+%%PORTDOCS%%%%DOCSDIR%%/README.libsms
+%%PORTDOCS%%%%DOCSDIR%%/gettext-howto
+%%PORTDOCS%%%%DOCSDIR%%/gnokii-IrDA-Linux
+%%PORTDOCS%%%%DOCSDIR%%/gnokii-hackers-howto
+%%PORTDOCS%%%%DOCSDIR%%/gnokii-ir-howto
+%%PORTDOCS%%%%DOCSDIR%%/logos.txt
+%%PORTDOCS%%%%DOCSDIR%%/packaging-howto
+%%PORTDOCS%%%%DOCSDIR%%/ringtones.txt
+%%PORTDOCS%%%%DOCSDIR%%/sample/gnokiirc
+%%PORTDOCS%%%%DOCSDIR%%/sample/logo/bronto.xpm
+%%PORTDOCS%%%%DOCSDIR%%/sample/logo/gnokii.xpm
+%%PORTDOCS%%%%DOCSDIR%%/sample/logo/gnokiiop.xpm
+%%PORTDOCS%%%%DOCSDIR%%/sample/logo/horse.xpm
+%%PORTDOCS%%%%DOCSDIR%%/sample/logo/horse2.xpm
+%%PORTDOCS%%%%DOCSDIR%%/sample/logo/pacman.xpm
+%%PORTDOCS%%%%DOCSDIR%%/sample/magic
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/cimd-connect
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/options
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/pap-secrets
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/ppp-6210-modem
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/ppp-FILES
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/ppp-gnokii
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/ppp-hscsd
+%%PORTDOCS%%%%DOCSDIR%%/sample/ppp/ppp-on
+%%PORTDOCS%%%%DOCSDIR%%/sample/ringtone/star.imelody
+%%PORTDOCS%%%%DOCSDIR%%/sample/ringtone/star.rtttl
+%%PORTDOCS%%%%DOCSDIR%%/sample/vCalendar/test.vcs
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/sample/logo
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/sample/ringtone
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/sample/vCalendar
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/sample/vCard
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/sample/ppp
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/sample
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
+%%PORTDOCS%%@exec mkdir -m 755 %D/%%DOCSDIR%%/sample/vCard
share/locale/cs/LC_MESSAGES/gnokii.mo
share/locale/de/LC_MESSAGES/gnokii.mo
share/locale/et/LC_MESSAGES/gnokii.mo
diff --git a/comms/ltmdm/pkg-plist b/comms/ltmdm/pkg-plist
index 7c5fc2d378b3..b467929877c1 100644
--- a/comms/ltmdm/pkg-plist
+++ b/comms/ltmdm/pkg-plist
@@ -2,8 +2,8 @@
etc/rc.d/ltmdm.sh
share/ltmdm/ltmdm.ko
@dirrm share/ltmdm
-%%PORTDOCS%%share/doc/ltmdm/README.TXT
-%%PORTDOCS%%share/doc/ltmdm/README-en.TXT
-%%PORTDOCS%%share/doc/ltmdm/INSTALL.TXT
-%%PORTDOCS%%share/doc/ltmdm/INSTALL-en.TXT
-%%PORTDOCS%%@dirrm share/doc/ltmdm
+%%PORTDOCS%%%%DOCSDIR%%/README.TXT
+%%PORTDOCS%%%%DOCSDIR%%/README-en.TXT
+%%PORTDOCS%%%%DOCSDIR%%/INSTALL.TXT
+%%PORTDOCS%%%%DOCSDIR%%/INSTALL-en.TXT
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/mserver/pkg-plist b/comms/mserver/pkg-plist
index b322ae384c95..ff85b8040989 100644
--- a/comms/mserver/pkg-plist
+++ b/comms/mserver/pkg-plist
@@ -2,6 +2,6 @@ sbin/mserver
sbin/tcpconn
etc/mserver.conf.default
etc/rc.d/mserver.sh.sample
-%%PORTDOCS%%share/doc/mserver/README
-%%PORTDOCS%%share/doc/mserver/README.tcpconn
-%%PORTDOCS%%@dirrm share/doc/mserver
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/README.tcpconn
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/p5-Device-Modem/pkg-plist b/comms/p5-Device-Modem/pkg-plist
index cecdee83672f..ffeeb5cd0319 100644
--- a/comms/p5-Device-Modem/pkg-plist
+++ b/comms/p5-Device-Modem/pkg-plist
@@ -5,8 +5,8 @@
%%PORTDOCS%%%%DOCSDIR%%/examples/active.pl
%%PORTDOCS%%%%DOCSDIR%%/examples/dial.pl
%%PORTDOCS%%%%DOCSDIR%%/examples/shell.pl
-%%PORTDOCS%%@dirrm share/doc/Device-Modem/examples
-%%PORTDOCS%%@dirrm share/doc/Device-Modem
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/examples
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Device/Modem
@unexec rmdir %D/%%SITE_PERL%%/%%PERL_ARCH%%/auto/Device 2>/dev/null || true
@unexec rmdir %D/%%SITE_PERL%%/Device 2>/dev/null || true
diff --git a/comms/pr/pkg-plist b/comms/pr/pkg-plist
index dbe0e4cd046c..898da9260cd1 100644
--- a/comms/pr/pkg-plist
+++ b/comms/pr/pkg-plist
@@ -2,5 +2,5 @@ etc/PortRedirector.conf.sample
etc/rc.d/pr.sh.sample
sbin/PortRedirector
sbin/PortTest
-share/doc/pr/PR.html
-@dirrm share/doc/pr
+%%DOCSDIR%%/PR.html
+@dirrm %%DOCSDIR%%
diff --git a/comms/qico/pkg-plist b/comms/qico/pkg-plist
index cda5a64a5449..d0cd6806a51e 100644
--- a/comms/qico/pkg-plist
+++ b/comms/qico/pkg-plist
@@ -1,6 +1,6 @@
%%WITH_QICO_MORDA%%bin/qcc
etc/qico.conf.sample
libexec/qico
-%%PORTDOCS%%share/doc/qico/FAQ.ru
-%%PORTDOCS%%share/doc/qico/README.ru
-%%PORTDOCS%%@dirrm share/doc/qico
+%%PORTDOCS%%%%DOCSDIR%%/FAQ.ru
+%%PORTDOCS%%%%DOCSDIR%%/README.ru
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/qicosi/pkg-plist b/comms/qicosi/pkg-plist
index cda5a64a5449..d0cd6806a51e 100644
--- a/comms/qicosi/pkg-plist
+++ b/comms/qicosi/pkg-plist
@@ -1,6 +1,6 @@
%%WITH_QICO_MORDA%%bin/qcc
etc/qico.conf.sample
libexec/qico
-%%PORTDOCS%%share/doc/qico/FAQ.ru
-%%PORTDOCS%%share/doc/qico/README.ru
-%%PORTDOCS%%@dirrm share/doc/qico
+%%PORTDOCS%%%%DOCSDIR%%/FAQ.ru
+%%PORTDOCS%%%%DOCSDIR%%/README.ru
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/snooper/pkg-plist b/comms/snooper/pkg-plist
index 4d82e1245b47..dff01482eb7a 100644
--- a/comms/snooper/pkg-plist
+++ b/comms/snooper/pkg-plist
@@ -1,3 +1,3 @@
bin/snooper
-%%PORTDOCS%%share/doc/snooper/README
-%%PORTDOCS%%@dirrm share/doc/snooper
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/sredird/pkg-plist b/comms/sredird/pkg-plist
index daf06e5dbbc4..82fa795934a8 100644
--- a/comms/sredird/pkg-plist
+++ b/comms/sredird/pkg-plist
@@ -1,4 +1,4 @@
libexec/sredird
-%%PORTDOCS%%share/doc/sredird/README
-%%PORTDOCS%%share/doc/sredird/COPYING
-%%PORTDOCS%%@dirrm share/doc/sredird
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/COPYING
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/comms/yaps/pkg-plist b/comms/yaps/pkg-plist
index 665116895f0e..6001c95c32ae 100644
--- a/comms/yaps/pkg-plist
+++ b/comms/yaps/pkg-plist
@@ -1,7 +1,7 @@
bin/yaps
@exec mkdir -p %D/share/yaps
etc/yaps.rc.sample
-%%PORTDOCS%%share/doc/yaps/yaps.doc
-%%PORTDOCS%%share/doc/yaps/yaps.html
-%%PORTDOCS%%@dirrm share/doc/yaps
+%%PORTDOCS%%%%DOCSDIR%%/yaps.doc
+%%PORTDOCS%%%%DOCSDIR%%/yaps.html
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
@unexec rmdir %D/share/yaps 2>/dev/null || true
diff --git a/comms/yawmppp/pkg-plist b/comms/yawmppp/pkg-plist
index 1c4de067cbe1..1d74fc9deed2 100644
--- a/comms/yawmppp/pkg-plist
+++ b/comms/yawmppp/pkg-plist
@@ -3,8 +3,8 @@ bin/yawmppp
bin/yawmppp.log
bin/yawmppp.pref
bin/yawmppp.thin
-%%PORTDOCS%%share/doc/yawmppp/CHANGELOG
-%%PORTDOCS%%share/doc/yawmppp/FAQ
-%%PORTDOCS%%share/doc/yawmppp/README
-%%PORTDOCS%%share/doc/yawmppp/TODO
-%%PORTDOCS%%@dirrm share/doc/yawmppp
+%%PORTDOCS%%%%DOCSDIR%%/CHANGELOG
+%%PORTDOCS%%%%DOCSDIR%%/FAQ
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/TODO
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/converters/chmview/pkg-plist b/converters/chmview/pkg-plist
index 677d264eacc5..e046d8cd082b 100644
--- a/converters/chmview/pkg-plist
+++ b/converters/chmview/pkg-plist
@@ -1,3 +1,3 @@
bin/chmview
-share/doc/chmview/chmformat.html
-@dirrm share/doc/chmview
+%%DOCSDIR%%/chmformat.html
+@dirrm %%DOCSDIR%%
diff --git a/converters/enca/pkg-plist b/converters/enca/pkg-plist
index 5f02ed4c0521..3feda7cbcfa2 100644
--- a/converters/enca/pkg-plist
+++ b/converters/enca/pkg-plist
@@ -9,12 +9,12 @@ lib/libenca.a
lib/libenca.so
lib/libenca.so.3
libdata/pkgconfig/enca.pc
-%%PORTDOCS%%share/doc/enca/libenca/c4.html
-%%PORTDOCS%%share/doc/enca/libenca/index.html
-%%PORTDOCS%%share/doc/enca/libenca/index.sgml
-%%PORTDOCS%%share/doc/enca/libenca/libenca-analyser.html
-%%PORTDOCS%%share/doc/enca/libenca/libenca-auxiliary-functions.html
-%%PORTDOCS%%share/doc/enca/libenca/libenca-charsets-and-surfaces.html
-%%PORTDOCS%%share/doc/enca/libenca/libenca-typedefs-and-constants.html
-%%PORTDOCS%%@dirrm share/doc/enca/libenca
-%%PORTDOCS%%@dirrm share/doc/enca
+%%PORTDOCS%%%%DOCSDIR%%/libenca/c4.html
+%%PORTDOCS%%%%DOCSDIR%%/libenca/index.html
+%%PORTDOCS%%%%DOCSDIR%%/libenca/index.sgml
+%%PORTDOCS%%%%DOCSDIR%%/libenca/libenca-analyser.html
+%%PORTDOCS%%%%DOCSDIR%%/libenca/libenca-auxiliary-functions.html
+%%PORTDOCS%%%%DOCSDIR%%/libenca/libenca-charsets-and-surfaces.html
+%%PORTDOCS%%%%DOCSDIR%%/libenca/libenca-typedefs-and-constants.html
+%%PORTDOCS%%@dirrm %%DOCSDIR%%/libenca
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/converters/mule-ucs/pkg-plist b/converters/mule-ucs/pkg-plist
index 87f37ba022c4..67995c347d09 100644
--- a/converters/mule-ucs/pkg-plist
+++ b/converters/mule-ucs/pkg-plist
@@ -97,11 +97,11 @@
@dirrm %%EMACS_LIBDIR_WITH_VER%%/site-lisp/mule-ucs/jisx0213
@dirrm %%EMACS_LIBDIR_WITH_VER%%/site-lisp/mule-ucs/reldata
@dirrm %%EMACS_LIBDIR_WITH_VER%%/site-lisp/mule-ucs
-%%PORTDOCS%%share/doc/mule-ucs/ChangeLog
-%%PORTDOCS%%share/doc/mule-ucs/ChangeLog.jisx0213
-%%PORTDOCS%%share/doc/mule-ucs/MuleUni.txt
-%%PORTDOCS%%share/doc/mule-ucs/README
-%%PORTDOCS%%share/doc/mule-ucs/README.Unicode
-%%PORTDOCS%%share/doc/mule-ucs/README.big5conv
-%%PORTDOCS%%share/doc/mule-ucs/README.jisx0213
-%%PORTDOCS%%@dirrm share/doc/mule-ucs
+%%PORTDOCS%%%%DOCSDIR%%/ChangeLog
+%%PORTDOCS%%%%DOCSDIR%%/ChangeLog.jisx0213
+%%PORTDOCS%%%%DOCSDIR%%/MuleUni.txt
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/README.Unicode
+%%PORTDOCS%%%%DOCSDIR%%/README.big5conv
+%%PORTDOCS%%%%DOCSDIR%%/README.jisx0213
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/converters/utf8conv/pkg-plist b/converters/utf8conv/pkg-plist
index 065d810ed7d7..b3c562fd432d 100644
--- a/converters/utf8conv/pkg-plist
+++ b/converters/utf8conv/pkg-plist
@@ -1,3 +1,3 @@
bin/utf8conv
-%%PORTDOCS%%share/doc/utf8conv/README
-%%PORTDOCS%%@dirrm share/doc/utf8conv
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/converters/uudeview/pkg-plist b/converters/uudeview/pkg-plist
index 45cdbac2303e..dc6c9cadfd30 100644
--- a/converters/uudeview/pkg-plist
+++ b/converters/uudeview/pkg-plist
@@ -1,5 +1,5 @@
bin/uudeview
bin/uuenview
-%%PORTDOCS%%share/doc/uudeview/HISTORY
-%%PORTDOCS%%share/doc/uudeview/porting.notes
-%%PORTDOCS%%@dirrm share/doc/uudeview
+%%PORTDOCS%%%%DOCSDIR%%/HISTORY
+%%PORTDOCS%%%%DOCSDIR%%/porting.notes
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/converters/uulib/pkg-plist b/converters/uulib/pkg-plist
index cb91049d7218..c1a127a0caa4 100644
--- a/converters/uulib/pkg-plist
+++ b/converters/uulib/pkg-plist
@@ -2,16 +2,16 @@ lib/libuu.a
lib/libuu.so
lib/libuu.so.2
include/uudeview.h
-%%PORTDOCS%%share/doc/uulib/Makefile
-%%PORTDOCS%%share/doc/uulib/README
-%%PORTDOCS%%share/doc/uulib/binhex.fig
-%%PORTDOCS%%share/doc/uulib/library.ltx
-%%PORTDOCS%%share/doc/uulib/structure.fig
-%%PORTDOCS%%share/doc/uulib/td-v1.c
-%%PORTDOCS%%share/doc/uulib/td-v2.c
-%%PORTDOCS%%share/doc/uulib/td-v3.c
-%%PORTDOCS%%share/doc/uulib/test.txt
-%%PORTDOCS%%share/doc/uulib/porting.notes
-%%PORTDOCS%%share/doc/uulib/HISTORY
-%%PORTDOCS%%share/doc/uulib/COPYING
-%%PORTDOCS%%@dirrm share/doc/uulib
+%%PORTDOCS%%%%DOCSDIR%%/Makefile
+%%PORTDOCS%%%%DOCSDIR%%/README
+%%PORTDOCS%%%%DOCSDIR%%/binhex.fig
+%%PORTDOCS%%%%DOCSDIR%%/library.ltx
+%%PORTDOCS%%%%DOCSDIR%%/structure.fig
+%%PORTDOCS%%%%DOCSDIR%%/td-v1.c
+%%PORTDOCS%%%%DOCSDIR%%/td-v2.c
+%%PORTDOCS%%%%DOCSDIR%%/td-v3.c
+%%PORTDOCS%%%%DOCSDIR%%/test.txt
+%%PORTDOCS%%%%DOCSDIR%%/porting.notes
+%%PORTDOCS%%%%DOCSDIR%%/HISTORY
+%%PORTDOCS%%%%DOCSDIR%%/COPYING
+%%PORTDOCS%%@dirrm %%DOCSDIR%%
diff --git a/converters/xdeview/pkg-plist b/converters/xdeview/pkg-plist
index 1aeedf24fa32..90ab037f8eb2 100644
--- a/converters/xdeview/pkg-plist
+++ b/converters/xdeview/pkg-plist
@@ -1,4 +1,4 @@
bin/uuwish
bin/xdeview
-%%PORTDOCS%%share/doc/xdeview/porting.notes
-%%PORTDOCS%%@dirrm share/doc/xdeview
+%%PORTDOCS%%%%DOCSDIR%%/porting.notes
+%%PORTDOCS%%@dirrm %%DOCSDIR%%