Date: Mon, 20 Oct 2014 07:10:48 +0000 (UTC) From: Baptiste Daroussin <bapt@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r371237 - in head/biology: artemis biococoa crux emboss fasta3 fastdnaml garlic hmmer iolib jalview libsbml mafft mopac mummer ncbi-toolkit p5-AcePerl p5-Bio-ASN1-EntrezGene p5-Bio-Das ... Message-ID: <201410200710.s9K7AmFi059387@svn.freebsd.org>
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Author: bapt Date: Mon Oct 20 07:10:48 2014 New Revision: 371237 URL: https://svnweb.freebsd.org/changeset/ports/371237 QAT: https://qat.redports.org/buildarchive/r371237/ Log: Cleanup plist Modified: head/biology/artemis/pkg-plist head/biology/biococoa/pkg-plist head/biology/crux/pkg-plist head/biology/emboss/pkg-plist head/biology/fasta3/pkg-plist head/biology/fastdnaml/pkg-plist head/biology/garlic/pkg-plist head/biology/hmmer/pkg-plist head/biology/iolib/pkg-plist head/biology/jalview/pkg-plist head/biology/libsbml/pkg-plist head/biology/mafft/pkg-plist head/biology/mopac/pkg-plist head/biology/mummer/pkg-plist head/biology/ncbi-toolkit/pkg-plist head/biology/p5-AcePerl/pkg-plist head/biology/p5-Bio-ASN1-EntrezGene/pkg-plist head/biology/p5-Bio-Das-Lite/pkg-plist head/biology/p5-Bio-Das/pkg-plist head/biology/p5-Bio-GFF3/pkg-plist head/biology/p5-Bio-Glite/pkg-plist head/biology/p5-Bio-Graphics/pkg-plist head/biology/p5-Bio-MAGETAB/pkg-plist head/biology/p5-Bio-NEXUS/pkg-plist head/biology/p5-Bio-Phylo/pkg-plist head/biology/p5-Bio-SCF/pkg-plist head/biology/p5-bioperl-run/pkg-plist head/biology/p5-bioperl/pkg-plist head/biology/paml/pkg-plist head/biology/phylip/pkg-plist head/biology/platon/pkg-plist head/biology/protomol/pkg-plist head/biology/ruby-bio/pkg-plist head/biology/seqan/pkg-plist head/biology/tinker/pkg-plist head/biology/ugene/pkg-plist Modified: head/biology/artemis/pkg-plist ============================================================================== --- head/biology/artemis/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/artemis/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -1778,34 +1778,3 @@ artemis-%%PORTVERSION%%/uk/ac/sanger/art artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/util/WorkingGZIPInputStream.java bin/act bin/art -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/ibatis -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/util -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/sequence -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/plot -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/j2ssh -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/io -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/editor -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/components/genebuilder/gff -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/components/genebuilder/cv -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/components/genebuilder -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/components/filetree -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/components/database -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/components -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis/chado -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger/artemis -@dirrm artemis-%%PORTVERSION%%/uk/ac/sanger -@dirrm artemis-%%PORTVERSION%%/uk/ac -@dirrm artemis-%%PORTVERSION%%/uk -@dirrm artemis-%%PORTVERSION%%/type -@dirrm artemis-%%PORTVERSION%%/seqdb -@dirrm artemis-%%PORTVERSION%%/nsdb/NucFeaturePackage -@dirrm artemis-%%PORTVERSION%%/nsdb/LocationPackage -@dirrm artemis-%%PORTVERSION%%/nsdb/EmblPackage -@dirrm artemis-%%PORTVERSION%%/nsdb -@dirrm artemis-%%PORTVERSION%%/lib/j2ssh -@dirrm artemis-%%PORTVERSION%%/lib/ibatis -@dirrm artemis-%%PORTVERSION%%/lib -@dirrm artemis-%%PORTVERSION%%/images -@dirrm artemis-%%PORTVERSION%%/etc -@dirrm artemis-%%PORTVERSION%%/artemis_sqlmap -@dirrm artemis-%%PORTVERSION%% Modified: head/biology/biococoa/pkg-plist ============================================================================== --- head/biology/biococoa/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/biococoa/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -63,8 +63,3 @@ GNUstep/Local/Library/Headers/BioCocoa GNUstep/Local/Library/Libraries/libBioCocoa.so GNUstep/Local/Library/Libraries/libBioCocoa.so.2 GNUstep/Local/Library/Libraries/libBioCocoa.so.2.2.2 -@dirrmtry GNUstep/Local/Library/Frameworks/BioCocoa.framework/Versions/2/Resources -@dirrmtry GNUstep/Local/Library/Frameworks/BioCocoa.framework/Versions/2/Headers -@dirrmtry GNUstep/Local/Library/Frameworks/BioCocoa.framework/Versions/2 -@dirrmtry GNUstep/Local/Library/Frameworks/BioCocoa.framework/Versions -@dirrmtry GNUstep/Local/Library/Frameworks/BioCocoa.framework Modified: head/biology/crux/pkg-plist ============================================================================== --- head/biology/crux/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/crux/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -54,19 +54,3 @@ lib/Crux/parsers/Fasta.pickle %%PYTHON_SITELIBDIR%%/Crux/__init__.py %%PYTHON_SITELIBDIR%%/Crux/__init__.so %%PYTHON_SITELIBDIR%%/Parsing.so -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/Tree -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/SFMT -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/Mc3 -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/DistMatrix -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/Crux/DistMatrix -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/Crux/Tree -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux/Crux -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include/Crux -@dirrm %%PYTHON_SITELIBDIR%%/Crux/include -@dirrm %%PYTHON_SITELIBDIR%%/Crux/Tree -@dirrm %%PYTHON_SITELIBDIR%%/Crux/Mc3 -@dirrm %%PYTHON_SITELIBDIR%%/Crux/DistMatrix -@dirrm %%PYTHON_SITELIBDIR%%/Crux -@dirrm lib/Crux/parsers -@dirrm lib/Crux/lib -@dirrm lib/Crux Modified: head/biology/emboss/pkg-plist ============================================================================== --- head/biology/emboss/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/emboss/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -2314,51 +2314,3 @@ lib/libnucleus.so.6.0.5 %%PORTDOCS%%%%DOCSDIR%%/programs/text/wosstopic.txt %%PORTDOCS%%%%DOCSDIR%%/programs/text/xmlget.txt %%PORTDOCS%%%%DOCSDIR%%/programs/text/xmltext.txt -@dirrm bin -@dirrm include/ezlib -@dirrm include/eplplot -@dirrm include/epcre -@dirrm include/eexpat -@dirrm include -@dirrm lib -@dirrm %%DATADIR%%/acd -@dirrm %%DATADIR%%/data/AAINDEX -@dirrm %%DATADIR%%/data/CODONS -@dirrm %%DATADIR%%/data/JASPAR_CNE -@dirrm %%DATADIR%%/data/JASPAR_CORE -@dirrm %%DATADIR%%/data/JASPAR_FAM -@dirrm %%DATADIR%%/data/JASPAR_PHYLOFACTS -@dirrm %%DATADIR%%/data/JASPAR_PBM -@dirrm %%DATADIR%%/data/JASPAR_PBM_HLH -@dirrm %%DATADIR%%/data/JASPAR_PBM_HOMEO -@dirrm %%DATADIR%%/data/JASPAR_POLII -@dirrm %%DATADIR%%/data/JASPAR_SPLICE -@dirrm %%DATADIR%%/data/OBO -@dirrm %%DATADIR%%/data/PRINTS -@dirrm %%DATADIR%%/data/PROSITE -@dirrm %%DATADIR%%/data/REBASE -@dirrm %%DATADIR%%/data/TAXONOMY -@dirrm %%DATADIR%%/data -@dirrm %%DATADIR%%/index -@dirrm %%DATADIR%%/jemboss/images -@dirrm %%DATADIR%%/jemboss/lib/axis -@dirrm %%DATADIR%%/jemboss/lib -@dirrm %%DATADIR%%/jemboss/resources -@dirrm %%DATADIR%%/jemboss/utils -@dirrm %%DATADIR%%/jemboss -@dirrm %%DATADIR%%/test/data -@dirrm %%DATADIR%%/test/embl -@dirrm %%DATADIR%%/test/genbank -@dirrm %%DATADIR%%/test/pir -@dirrm %%DATADIR%%/test/swiss -@dirrm %%DATADIR%%/test/swnew -@dirrm %%DATADIR%%/test/testdb -@dirrm %%DATADIR%%/test -@dirrmtry %%DATADIR%% -%%PORTDOCS%%@dirrm %%DOCSDIR%%/manuals -%%PORTDOCS%%@dirrm %%DOCSDIR%%/programs/html -%%PORTDOCS%%@dirrm %%DOCSDIR%%/programs/text -%%PORTDOCS%%@dirrm %%DOCSDIR%%/programs -%%PORTDOCS%%@dirrm %%DOCSDIR%%/tutorials -%%PORTDOCS%%@dirrm %%DOCSDIR%% -@dirrmtry share Modified: head/biology/fasta3/pkg-plist ============================================================================== --- head/biology/fasta3/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/fasta3/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -118,6 +118,3 @@ man/man1/tfasty35.1.gz %%DATADIR%%/pam250.mat %%DATADIR%%/rna.mat %%DATADIR%%/vtml160.mat -@dirrm %%DATADIR%% -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%% -%%PORTDOCS%%@dirrm %%DOCSDIR%% Modified: head/biology/fastdnaml/pkg-plist ============================================================================== --- head/biology/fastdnaml/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/fastdnaml/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -32,4 +32,3 @@ bin/fastdnaml/usertree bin/fastdnaml/usertrees bin/fastdnaml/weights bin/fastdnaml/weights_categories -@dirrm bin/fastdnaml Modified: head/biology/garlic/pkg-plist ============================================================================== --- head/biology/garlic/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/garlic/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -1,7 +1,6 @@ bin/garlic share/garlic/.garlicrc share/garlic/residues.pdb -@dirrm share/garlic %%PORTDOCS%%%%DOCSDIR%%/README %%PORTDOCS%%%%DOCSDIR%%/ascorbic_acid1.jpg %%PORTDOCS%%%%DOCSDIR%%/ascorbic_acid2.jpg @@ -258,30 +257,6 @@ share/garlic/residues.pdb %%PORTDOCS%%%%DOCSDIR%%/whatis/favicon.ico %%PORTDOCS%%%%DOCSDIR%%/whatis/garlic.gif %%PORTDOCS%%%%DOCSDIR%%/whatis/index.html -%%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%%/precompiled_packages -%%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%%/adrenaline.pdb %%PORTDOCS%%%%EXAMPLESDIR%%/22porins.script %%PORTDOCS%%%%EXAMPLESDIR%%/backup-hyd.script @@ -325,4 +300,3 @@ share/garlic/residues.pdb %%PORTDOCS%%%%EXAMPLESDIR%%/trp.pdb %%PORTDOCS%%%%EXAMPLESDIR%%/two-positive.script %%PORTDOCS%%%%EXAMPLESDIR%%/water.pdb -%%PORTDOCS%%@dirrm %%EXAMPLESDIR%% Modified: head/biology/hmmer/pkg-plist ============================================================================== --- head/biology/hmmer/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/hmmer/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -43,5 +43,3 @@ man/man1/phmmer.1.gz %%PORTEXAMPLES%%%%EXAMPLESDIR%%/globins4.out %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam %%PORTEXAMPLES%%%%EXAMPLESDIR%%/minifam.h3m -%%PORTDOCS%%@dirrm %%DOCSDIR%% -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%% Modified: head/biology/iolib/pkg-plist ============================================================================== --- head/biology/iolib/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/iolib/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -110,4 +110,3 @@ man/man3/write_reading.3.gz man/man3/write_scf.3.gz man/man3/write_scf_header.3.gz man/man4/Read.4.gz -@dirrmtry include/io_lib Modified: head/biology/jalview/pkg-plist ============================================================================== --- head/biology/jalview/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/jalview/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -14,4 +14,3 @@ bin/jalview %%DATADIR%%/castor-0.9.6-xml.jar %%DATADIR%%/axis.jar %%DATADIR%%/xml-apis.jar -@dirrm %%DATADIR%% Modified: head/biology/libsbml/pkg-plist ============================================================================== --- head/biology/libsbml/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/libsbml/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -492,37 +492,3 @@ lib/libsbml.so.5.10.2 %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample-models/from-spec/level-3/twoalgebraicrules.xml %%PORTEXAMPLES%%%%EXAMPLESDIR%%/sample-models/from-spec/level-3/twodimensional.xml %%PORTEXAMPLES%%%%EXAMPLESDIR%%/xslt/layout/layout2svg.xsl -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/xslt/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/xslt -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/sample-models/from-spec/level-3 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/sample-models/from-spec/level-2 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/sample-models/from-spec -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/sample-models -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/ruby/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/ruby -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/r -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/python/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/python -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/perl/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/perl -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/java/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/java -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/csharp/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/csharp -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/c++/layout -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/c++ -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/c -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%% -%%PYTHON%%@dirrm %%PYTHON_SITELIBDIR%%/libsbml -@dirrm include/sbml/xml -@dirrm include/sbml/validator -@dirrm include/sbml/util -@dirrm include/sbml/units -@dirrm include/sbml/math -@dirrm include/sbml/extension -@dirrm include/sbml/conversion -@dirrm include/sbml/compress -@dirrm include/sbml/common -@dirrm include/sbml/annotation -@dirrm include/sbml Modified: head/biology/mafft/pkg-plist ============================================================================== --- head/biology/mafft/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/mafft/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -66,6 +66,3 @@ man/man1/mafft.1.gz %%PORTEXAMPLES%%%%EXAMPLESDIR%%/samplerna %%PORTEXAMPLES%%%%EXAMPLESDIR%%/samplerna.qinsi %%PORTEXAMPLES%%%%EXAMPLESDIR%%/samplerna.xinsi -@dirrmtry libexec/mafft -%%PORTDOCS%%@dirrmtry %%DOCSDIR%% -%%PORTEXAMPLES%%@dirrmtry %%EXAMPLESDIR%% Modified: head/biology/mopac/pkg-plist ============================================================================== --- head/biology/mopac/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/mopac/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -6,4 +6,3 @@ lib/libmopac7.so.0 lib/libmopac7.so.0.0.0 libdata/pkgconfig/libmopac7.pc libexec/mopac7 -@dirrm include/mopac7 Modified: head/biology/mummer/pkg-plist ============================================================================== --- head/biology/mummer/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/mummer/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -23,4 +23,3 @@ bin/show-tiling %%PORTDOCS%%%%DOCSDIR%%/INSTALL %%PORTDOCS%%%%DOCSDIR%%/LICENSE %%PORTDOCS%%%%DOCSDIR%%/README -%%PORTDOCS%%@dirrm %%DOCSDIR%% Modified: head/biology/ncbi-toolkit/pkg-plist ============================================================================== --- head/biology/ncbi-toolkit/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/ncbi-toolkit/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -811,12 +811,3 @@ man/man1/vecscreen.1.gz %%DATADIR%%/sgmlbb.ent %%DATADIR%%/taxlist.txt %%DATADIR%%/validrules.prt -@dirrmtry %%DATADIR%% -%%PORTDOCS%%@dirrm %%DOCSDIR%%/seq_install -%%PORTDOCS%%@dirrm %%DOCSDIR%%/images -%%PORTDOCS%%@dirrm %%DOCSDIR%%/fa2htgs -%%PORTDOCS%%@dirrm %%DOCSDIR%%/blast -%%PORTDOCS%%@dirrm %%DOCSDIR%% -@dirrm lib/ncbi -@dirrm include/ncbi/connect -@dirrm include/ncbi Modified: head/biology/p5-AcePerl/pkg-plist ============================================================================== --- head/biology/p5-AcePerl/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-AcePerl/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -144,16 +144,3 @@ bin/ace.pl %%PERL5_MAN3%%/Ace::Sequence::Multi.3.gz %%PERL5_MAN3%%/Ace::Sequence::Transcript.3.gz man/man1/ace.pl.1.gz -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Ace/Sequence/Feature -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Ace/Sequence -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Ace/RPC -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Ace/Object -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Ace/Freesubs -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Ace -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/GFF -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/Ace/Sequence -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/Ace/Object -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/Ace/Graphics/Glyph -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/Ace/Graphics -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/Ace/Browser -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/Ace Modified: head/biology/p5-Bio-ASN1-EntrezGene/pkg-plist ============================================================================== --- head/biology/p5-Bio-ASN1-EntrezGene/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-ASN1-EntrezGene/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -7,10 +7,3 @@ %%PERL5_MAN3%%/Bio::ASN1::EntrezGene::Indexer.3.gz %%PERL5_MAN3%%/Bio::ASN1::Sequence.3.gz %%PERL5_MAN3%%/Bio::ASN1::Sequence::Indexer.3.gz -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1/EntrezGene -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/ASN1 -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio -@dirrmtry %%SITE_PERL%%/Bio/ASN1/EntrezGene -@dirrmtry %%SITE_PERL%%/Bio/ASN1/Sequence -@dirrmtry %%SITE_PERL%%/Bio/ASN1 -@dirrmtry %%SITE_PERL%%/Bio Modified: head/biology/p5-Bio-Das-Lite/pkg-plist ============================================================================== --- head/biology/p5-Bio-Das-Lite/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-Das-Lite/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -1,4 +1,2 @@ %%SITE_PERL%%/Bio/Das/Lite.pm %%PERL5_MAN3%%/Bio::Das::Lite.3.gz -@dirrmtry %%SITE_PERL%%/Bio/Das -@dirrmtry %%SITE_PERL%%/Bio Modified: head/biology/p5-Bio-Das/pkg-plist ============================================================================== --- head/biology/p5-Bio-Das/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-Das/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -51,10 +51,3 @@ %%PERL5_MAN3%%/Bio::Das::Type.3.gz %%PERL5_MAN3%%/Bio::Das::TypeHandler.3.gz %%PERL5_MAN3%%/Bio::Das::Util.3.gz -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Das -@dirrmtry %%SITE_PERL%%/Bio/Das/Request -@dirrmtry %%SITE_PERL%%/Bio/Das/HTTP -@dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/MySQL -@dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage/CSV -@dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer/SQLStorage -@dirrmtry %%SITE_PERL%%/Bio/Das/AGPServer Modified: head/biology/p5-Bio-GFF3/pkg-plist ============================================================================== --- head/biology/p5-Bio-GFF3/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-GFF3/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -11,10 +11,3 @@ bin/gff3_from_fasta %%PERL5_MAN3%%/Bio::GFF3::Transform::FromFasta.3.gz %%PERL5_MAN3%%/Bio::GFF3::Transform::SyncDirectives.3.gz man/man1/gff3_from_fasta.1.gz -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/GFF3 -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio -@dirrm %%SITE_PERL%%/Bio/GFF3/Transform -@dirrm %%SITE_PERL%%/Bio/GFF3/LowLevel/Parser -@dirrm %%SITE_PERL%%/Bio/GFF3/LowLevel -@dirrm %%SITE_PERL%%/Bio/GFF3 -@dirrmtry %%SITE_PERL%%/Bio Modified: head/biology/p5-Bio-Glite/pkg-plist ============================================================================== --- head/biology/p5-Bio-Glite/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-Glite/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -1,6 +1,3 @@ %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Glite/.packlist %%SITE_PERL%%/Bio/Glite.pm %%PERL5_MAN3%%/Bio::Glite.3.gz -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Glite -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio -@dirrmtry %%SITE_PERL%%/Bio Modified: head/biology/p5-Bio-Graphics/pkg-plist ============================================================================== --- head/biology/p5-Bio-Graphics/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-Graphics/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -216,7 +216,3 @@ man/man1/contig_draw.pl.1.gz man/man1/feature_draw.pl.1.gz man/man1/frend.pl.1.gz man/man1/search_overview.pl.1.gz -@dirrmtry %%SITE_PERL%%/Bio/Graphics/FeatureFile -@dirrmtry %%SITE_PERL%%/Bio/Graphics/Glyph -@dirrmtry %%SITE_PERL%%/Bio/Graphics/Wiggle -@dirrmtry %%SITE_PERL%%/Bio/Graphics Modified: head/biology/p5-Bio-MAGETAB/pkg-plist ============================================================================== --- head/biology/p5-Bio-MAGETAB/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-MAGETAB/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -117,10 +117,3 @@ bin/unload_magetab_namespace.pl %%PERL5_MAN3%%/Bio::MAGETAB::Util::Writer::IDF.3.gz %%PERL5_MAN3%%/Bio::MAGETAB::Util::Writer::SDRF.3.gz %%PERL5_MAN3%%/Bio::MAGETAB::Util::Writer::Tabfile.3.gz -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/MAGETAB -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio -@dirrm %%SITE_PERL%%/Bio/MAGETAB/Util/Reader -@dirrm %%SITE_PERL%%/Bio/MAGETAB/Util/Writer -@dirrm %%SITE_PERL%%/Bio/MAGETAB/Util -@dirrm %%SITE_PERL%%/Bio/MAGETAB -@dirrmtry %%SITE_PERL%%/Bio Modified: head/biology/p5-Bio-NEXUS/pkg-plist ============================================================================== --- head/biology/p5-Bio-NEXUS/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-NEXUS/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -61,9 +61,3 @@ bin/nextool.pl man/man1/nex2text_tree.pl.1.gz man/man1/nexplot.pl.1.gz man/man1/nextool.pl.1.gz -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/NEXUS -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio -@dirrm %%SITE_PERL%%/Bio/NEXUS/Util -@dirrm %%SITE_PERL%%/Bio/NEXUS/Tools -@dirrm %%SITE_PERL%%/Bio/NEXUS -@dirrmtry %%SITE_PERL%%/Bio Modified: head/biology/p5-Bio-Phylo/pkg-plist ============================================================================== --- head/biology/p5-Bio-Phylo/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-Phylo/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -239,28 +239,3 @@ %%PERL5_MAN3%%/Bio::Phylo::Util::OptionalInterface.3.gz %%PERL5_MAN3%%/Bio::Phylo::Util::StackTrace.3.gz %%PERL5_MAN3%%/Bio::PhyloRole.3.gz -@dirrm %%SITE_PERL%%/Bio/Phylo/Util/CONSTANT -@dirrm %%SITE_PERL%%/Bio/Phylo/Util -@dirrm %%SITE_PERL%%/Bio/Phylo/Unparsers -@dirrm %%SITE_PERL%%/Bio/Phylo/Treedrawer -@dirrm %%SITE_PERL%%/Bio/Phylo/Taxa -@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Service -@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource -@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS -@dirrm %%SITE_PERL%%/Bio/Phylo/Parsers -@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/Meta -@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element -@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document -@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/DOM -@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML -@dirrm %%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna -@dirrm %%SITE_PERL%%/Bio/Phylo/Models/Substitution -@dirrm %%SITE_PERL%%/Bio/Phylo/Models -@dirrm %%SITE_PERL%%/Bio/Phylo/Mediators -@dirrm %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype -@dirrm %%SITE_PERL%%/Bio/Phylo/Matrices -@dirrm %%SITE_PERL%%/Bio/Phylo/Forest -@dirrm %%SITE_PERL%%/Bio/Phylo -@dirrmtry %%SITE_PERL%%/Bio -@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio Modified: head/biology/p5-Bio-SCF/pkg-plist ============================================================================== --- head/biology/p5-Bio-SCF/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-Bio-SCF/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -3,7 +3,3 @@ %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/SCF/SCF.so %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/SCF/.packlist %%PERL5_MAN3%%/Bio::SCF.3.gz -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/SCF -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/Bio/SCF -@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/Bio Modified: head/biology/p5-bioperl-run/pkg-plist ============================================================================== --- head/biology/p5-bioperl-run/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-bioperl-run/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -261,25 +261,3 @@ bin/bp_run_protdist %%PORTDOCS%%%%DOCSDIR%%/Changes %%PORTDOCS%%%%DOCSDIR%%/INSTALL.PROGRAMS %%PORTDOCS%%%%DOCSDIR%%/README -@dirrmtry %%SITE_PERL%%/Bio/DB/ESoap -@dirrmtry %%SITE_PERL%%/Bio/DB/SoapEUtilities/FetchAdaptor -@dirrmtry %%SITE_PERL%%/Bio/DB/SoapEUtilities -@dirrmtry %%SITE_PERL%%/Bio/Installer -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Alignment -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Analysis -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/AnalysisFactory -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/BEDTools -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/BWA -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/BlastPlus -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Bowtie -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Maq -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo/Hyphy -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo/Molphy -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo/Njtree -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo/PAML -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo/Phast -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo/Phylip -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Phylo -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/Samtools -@dirrmtry %%SITE_PERL%%/Bio/Tools/Run/StandAloneBlastPlus -%%PORTDOCS%%@dirrmtry %%DOCSDIR%% Modified: head/biology/p5-bioperl/pkg-plist ============================================================================== --- head/biology/p5-bioperl/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/p5-bioperl/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -1937,159 +1937,3 @@ man/man1/bp_unflatten_seq.pl.1.gz %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tools/seq_pattern.pl %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tools/standaloneblast.pl %%PORTEXAMPLES%%%%EXAMPLESDIR%%/tree/paup2phylip.pl -@dirrm %%SITE_PERL%%/Bio/Align -@dirrm %%SITE_PERL%%/Bio/AlignIO/Handler -@dirrm %%SITE_PERL%%/Bio/AlignIO -@dirrm %%SITE_PERL%%/Bio/Annotation -@dirrm %%SITE_PERL%%/Bio/Assembly/IO -@dirrm %%SITE_PERL%%/Bio/Assembly/Tools -@dirrm %%SITE_PERL%%/Bio/Assembly -@dirrm %%SITE_PERL%%/Bio/Cluster -@dirrm %%SITE_PERL%%/Bio/ClusterIO -@dirrm %%SITE_PERL%%/Bio/CodonUsage -@dirrm %%SITE_PERL%%/Bio/Coordinate/Result -@dirrm %%SITE_PERL%%/Bio/Coordinate -@dirrm %%SITE_PERL%%/Bio/DB/Expression -@dirrm %%SITE_PERL%%/Bio/DB/Flat/BDB -@dirrm %%SITE_PERL%%/Bio/DB/Flat -@dirrm %%SITE_PERL%%/Bio/DB/GFF/Adaptor/berkeleydb -@dirrm %%SITE_PERL%%/Bio/DB/GFF/Adaptor/dbi -@dirrm %%SITE_PERL%%/Bio/DB/GFF/Adaptor/memory -@dirrm %%SITE_PERL%%/Bio/DB/GFF/Adaptor -@dirrm %%SITE_PERL%%/Bio/DB/GFF/Aggregator -@dirrm %%SITE_PERL%%/Bio/DB/GFF/Util -@dirrm %%SITE_PERL%%/Bio/DB/GFF -@dirrm %%SITE_PERL%%/Bio/DB/HIV -@dirrm %%SITE_PERL%%/Bio/DB/Query -@dirrm %%SITE_PERL%%/Bio/DB/SeqFeature/Store/DBI -@dirrm %%SITE_PERL%%/Bio/DB/SeqFeature/Store -@dirrm %%SITE_PERL%%/Bio/DB/SeqFeature -@dirrm %%SITE_PERL%%/Bio/DB/SeqVersion -@dirrm %%SITE_PERL%%/Bio/DB/TFBS -@dirrm %%SITE_PERL%%/Bio/DB/Taxonomy -@dirrm %%SITE_PERL%%/Bio/DB -@dirrm %%SITE_PERL%%/Bio/Das -@dirrm %%SITE_PERL%%/Bio/Draw -@dirrm %%SITE_PERL%%/Bio/Event -@dirrm %%SITE_PERL%%/Bio/Factory -@dirrm %%SITE_PERL%%/Bio/Index -@dirrm %%SITE_PERL%%/Bio/LiveSeq/IO -@dirrm %%SITE_PERL%%/Bio/LiveSeq -@dirrm %%SITE_PERL%%/Bio/Location -@dirrm %%SITE_PERL%%/Bio/Map -@dirrm %%SITE_PERL%%/Bio/MapIO -@dirrm %%SITE_PERL%%/Bio/Matrix/IO -@dirrm %%SITE_PERL%%/Bio/Matrix/PSM/IO -@dirrm %%SITE_PERL%%/Bio/Matrix/PSM -@dirrm %%SITE_PERL%%/Bio/Matrix -@dirrm %%SITE_PERL%%/Bio/MolEvol -@dirrm %%SITE_PERL%%/Bio/Nexml -@dirrm %%SITE_PERL%%/Bio/Ontology/SimpleGOEngine -@dirrm %%SITE_PERL%%/Bio/Ontology -@dirrm %%SITE_PERL%%/Bio/OntologyIO/Handlers -@dirrm %%SITE_PERL%%/Bio/OntologyIO -@dirrm %%SITE_PERL%%/Bio/Phenotype/MeSH -@dirrm %%SITE_PERL%%/Bio/Phenotype/OMIM -@dirrm %%SITE_PERL%%/Bio/Phenotype -@dirrm %%SITE_PERL%%/Bio/PhyloNetwork -@dirrm %%SITE_PERL%%/Bio/PopGen/IO -@dirrm %%SITE_PERL%%/Bio/PopGen/Simulation -@dirrm %%SITE_PERL%%/Bio/PopGen -@dirrm %%SITE_PERL%%/Bio/Restriction/Enzyme -@dirrm %%SITE_PERL%%/Bio/Restriction/IO -@dirrm %%SITE_PERL%%/Bio/Restriction -@dirrm %%SITE_PERL%%/Bio/Root -@dirrm %%SITE_PERL%%/Bio/Search/HSP -@dirrm %%SITE_PERL%%/Bio/Search/Hit -@dirrm %%SITE_PERL%%/Bio/Search/Iteration -@dirrm %%SITE_PERL%%/Bio/Search/Result -@dirrm %%SITE_PERL%%/Bio/Search/Tiling -@dirrm %%SITE_PERL%%/Bio/Search -@dirrm %%SITE_PERL%%/Bio/SearchIO/Writer -@dirrm %%SITE_PERL%%/Bio/SearchIO/XML -@dirrm %%SITE_PERL%%/Bio/SearchIO -@dirrm %%SITE_PERL%%/Bio/Seq/Meta -@dirrm %%SITE_PERL%%/Bio/Seq -@dirrm %%SITE_PERL%%/Bio/SeqEvolution -@dirrm %%SITE_PERL%%/Bio/SeqFeature/Gene -@dirrm %%SITE_PERL%%/Bio/SeqFeature/SiRNA -@dirrm %%SITE_PERL%%/Bio/SeqFeature/Tools -@dirrm %%SITE_PERL%%/Bio/SeqFeature -@dirrm %%SITE_PERL%%/Bio/SeqIO/Handler -@dirrm %%SITE_PERL%%/Bio/SeqIO/game -@dirrm %%SITE_PERL%%/Bio/SeqIO/tinyseq -@dirrm %%SITE_PERL%%/Bio/SeqIO -@dirrm %%SITE_PERL%%/Bio/Structure/IO -@dirrm %%SITE_PERL%%/Bio/Structure/SecStr/DSSP -@dirrm %%SITE_PERL%%/Bio/Structure/SecStr/STRIDE -@dirrm %%SITE_PERL%%/Bio/Structure/SecStr -@dirrm %%SITE_PERL%%/Bio/Structure -@dirrm %%SITE_PERL%%/Bio/Symbol -@dirrm %%SITE_PERL%%/Bio/Taxonomy -@dirrm %%SITE_PERL%%/Bio/Tools/Alignment -@dirrm %%SITE_PERL%%/Bio/Tools/Analysis/DNA -@dirrm %%SITE_PERL%%/Bio/Tools/Analysis/Protein -@dirrm %%SITE_PERL%%/Bio/Tools/Analysis -@dirrm %%SITE_PERL%%/Bio/Tools/EMBOSS -@dirrm %%SITE_PERL%%/Bio/Tools/HMMER -@dirrm %%SITE_PERL%%/Bio/Tools/Phylo/Molphy -@dirrm %%SITE_PERL%%/Bio/Tools/Phylo/PAML -@dirrm %%SITE_PERL%%/Bio/Tools/Phylo/Phylip -@dirrm %%SITE_PERL%%/Bio/Tools/Phylo -@dirrm %%SITE_PERL%%/Bio/Tools/Prediction -@dirrm %%SITE_PERL%%/Bio/Tools/Primer/Assessor -@dirrm %%SITE_PERL%%/Bio/Tools/Primer -@dirrm %%SITE_PERL%%/Bio/Tools/Run/WrapperBase -@dirrm %%SITE_PERL%%/Bio/Tools/Run -@dirrm %%SITE_PERL%%/Bio/Tools/SeqPattern -@dirrm %%SITE_PERL%%/Bio/Tools/SiRNA/Ruleset -@dirrm %%SITE_PERL%%/Bio/Tools/SiRNA -@dirrm %%SITE_PERL%%/Bio/Tools/Signalp -@dirrm %%SITE_PERL%%/Bio/Tools/Sim4 -@dirrm %%SITE_PERL%%/Bio/Tools/Spidey -@dirrm %%SITE_PERL%%/Bio/Tools -@dirrm %%SITE_PERL%%/Bio/Tree/Draw -@dirrm %%SITE_PERL%%/Bio/Tree -@dirrm %%SITE_PERL%%/Bio/TreeIO -@dirrm %%SITE_PERL%%/Bio/Variation/IO -@dirrm %%SITE_PERL%%/Bio/Variation -@dirrm %%DATADIR%%/models -@dirrm %%DATADIR%%/scripts/Bio-DB-GFF -@dirrm %%DATADIR%%/scripts/Bio-DB-SeqFeature-Store -@dirrm %%DATADIR%%/scripts/DB -@dirrm %%DATADIR%%/scripts/DB-HIV -@dirrm %%DATADIR%%/scripts/das -@dirrm %%DATADIR%%/scripts/index -@dirrm %%DATADIR%%/scripts/popgen -@dirrm %%DATADIR%%/scripts/searchio -@dirrm %%DATADIR%%/scripts/seq -@dirrm %%DATADIR%%/scripts/seqstats -@dirrm %%DATADIR%%/scripts/taxa -@dirrm %%DATADIR%%/scripts/tree -@dirrm %%DATADIR%%/scripts/utilities -@dirrm %%DATADIR%%/scripts -@dirrm %%DATADIR%% -%%PORTDOCS%%@dirrm %%DOCSDIR%%/doc/Deobfuscator/bin -%%PORTDOCS%%@dirrm %%DOCSDIR%%/doc/Deobfuscator/cgi-bin -%%PORTDOCS%%@dirrm %%DOCSDIR%%/doc/Deobfuscator/lib -%%PORTDOCS%%@dirrm %%DOCSDIR%%/doc/Deobfuscator/t -%%PORTDOCS%%@dirrm %%DOCSDIR%%/doc/Deobfuscator -%%PORTDOCS%%@dirrm %%DOCSDIR%%/doc -%%PORTDOCS%%@dirrm %%DOCSDIR%% -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/Bio-DB-GFF -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/align -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/cluster -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/contributed -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/db -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/liveseq -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/popgen -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/quality -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/root/lib -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/root -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/searchio -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/sirna -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/structure -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/tk -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/tools -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/tree -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%% Modified: head/biology/paml/pkg-plist ============================================================================== --- head/biology/paml/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/paml/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -8,4 +8,3 @@ bin/yn00 %%PORTDOCS%%%%DOCSDIR%%/pamlDOC.pdf %%PORTDOCS%%%%DOCSDIR%%/pamlFAQs.pdf %%PORTDOCS%%%%DOCSDIR%%/pamlHistory.txt -%%PORTDOCS%%@dirrm %%DOCSDIR%% Modified: head/biology/phylip/pkg-plist ============================================================================== --- head/biology/phylip/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/phylip/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -41,4 +41,3 @@ lib/libdrawtree.so %%DATADIR%%/font4 %%DATADIR%%/font5 %%DATADIR%%/font6 -@dirrm %%DATADIR%% Modified: head/biology/platon/pkg-plist ============================================================================== --- head/biology/platon/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/platon/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -72,13 +72,3 @@ bin/pluton %%DOCSDIR%%/s913a.res %%DOCSDIR%%/sucrose.spf %%PORTDOCS%%%%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/MULABS_EXAMPLE -@dirrm %%DOCSDIR%%/TEST/PSICOR_EXAMPLE -@dirrm %%DOCSDIR%%/TEST/SQUEEZE_EXAMPLE -@dirrm %%DOCSDIR%%/TEST -@dirrm %%DOCSDIR%% Modified: head/biology/protomol/pkg-plist ============================================================================== --- head/biology/protomol/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/protomol/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -112,17 +112,3 @@ bin/xyzviz %%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.spce.par %%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.spce.psf %%PORTEXAMPLES%%%%EXAMPLESDIR%%/water_648/water648.tip3.par -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/coulomb_309 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/alanine_dipeptide_water_184x -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/argon_400 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/bpti_water_1101 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/bpti_water_14281 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/butane_4 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/alanine_dipeptide_23 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/decalanine_66 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/electrons_22 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/methane_ethane_xxx -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/testset -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/water_216 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%%/water_648 -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%% Modified: head/biology/ruby-bio/pkg-plist ============================================================================== --- head/biology/ruby-bio/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/ruby-bio/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -330,65 +330,3 @@ bin/br_bioflat bin/br_biogetseq bin/br_pmfetch etc/bioinformatics/seqdatabase.ini.sample -@dirrm etc/bioinformatics -@dirrm %%RUBY_SITELIBDIR%%/bio/util/restriction_enzyme/single_strand -@dirrm %%RUBY_SITELIBDIR%%/bio/util/restriction_enzyme/range/sequence_range -@dirrm %%RUBY_SITELIBDIR%%/bio/util/restriction_enzyme/range -@dirrm %%RUBY_SITELIBDIR%%/bio/util/restriction_enzyme/double_stranded -@dirrm %%RUBY_SITELIBDIR%%/bio/util/restriction_enzyme -@dirrm %%RUBY_SITELIBDIR%%/bio/util/color_scheme -@dirrm %%RUBY_SITELIBDIR%%/bio/util -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails/vendor/plugins/bioruby/generators -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails/vendor/plugins/bioruby -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails/vendor/plugins -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails/vendor -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/rails -@dirrm %%RUBY_SITELIBDIR%%/bio/shell/plugin -@dirrm %%RUBY_SITELIBDIR%%/bio/shell -@dirrm %%RUBY_SITELIBDIR%%/bio/sequence -@dirrm %%RUBY_SITELIBDIR%%/bio/io/flatfile -@dirrm %%RUBY_SITELIBDIR%%/bio/io/biosql/config -@dirrm %%RUBY_SITELIBDIR%%/bio/io/biosql -@dirrm %%RUBY_SITELIBDIR%%/bio/io -@dirrm %%RUBY_SITELIBDIR%%/bio/db/sanger_chromatogram -@dirrm %%RUBY_SITELIBDIR%%/bio/db/phyloxml -@dirrm %%RUBY_SITELIBDIR%%/bio/db/pdb -@dirrm %%RUBY_SITELIBDIR%%/bio/db/kegg -@dirrm %%RUBY_SITELIBDIR%%/bio/db/genbank -@dirrm %%RUBY_SITELIBDIR%%/bio/db/fastq -@dirrm %%RUBY_SITELIBDIR%%/bio/db/fasta -@dirrm %%RUBY_SITELIBDIR%%/bio/db/embl -@dirrm %%RUBY_SITELIBDIR%%/bio/db/biosql -@dirrm %%RUBY_SITELIBDIR%%/bio/db -@dirrm %%RUBY_SITELIBDIR%%/bio/data -@dirrm %%RUBY_SITELIBDIR%%/bio/compat -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/tmhmm -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/targetp -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/spidey -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/sosui -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/sim4 -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/psort -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/phylip -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/paml/yn00 -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/paml/codeml -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/paml/baseml -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/paml -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/meme/mast -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/meme -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/mafft -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/iprscan -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/hmmer -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/genscan -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/gcg -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/fasta -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/clustalw -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/blat -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/blast -@dirrm %%RUBY_SITELIBDIR%%/bio/appl/bl2seq -@dirrm %%RUBY_SITELIBDIR%%/bio/appl -@dirrm %%RUBY_SITELIBDIR%%/bio -@dirrm %%RUBY_EXAMPLESDIR%%/bio -@dirrm %%RUBY_DOCDIR%%/bio/ja -@dirrm %%RUBY_DOCDIR%%/bio Modified: head/biology/seqan/pkg-plist ============================================================================== --- head/biology/seqan/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/seqan/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -2109,37 +2109,3 @@ include/seqan/version.h %%DATADIR%%/gapped_params/results_N73_H.dat %%DATADIR%%/gapped_params/results_N74_H.dat %%DATADIR%%/gapped_params/results_N75_H.dat -@dirrm %%DATADIR%%/gapped_params -@dirrm %%DATADIR%%/docs -@dirrm %%DATADIR%% -@dirrm include/seqan/system -@dirrm include/seqan/store -@dirrm include/seqan/statistics -@dirrm include/seqan/sequence_journaled -@dirrm include/seqan/sequence -@dirrm include/seqan/seeds2 -@dirrm include/seqan/seeds -@dirrm include/seqan/score -@dirrm include/seqan/refinement -@dirrm include/seqan/random -@dirrm include/seqan/platform -@dirrm include/seqan/pipe -@dirrm include/seqan/parallel -@dirrm include/seqan/modifier -@dirrm include/seqan/misc -@dirrm include/seqan/map -@dirrm include/seqan/index -@dirrm include/seqan/graph_types -@dirrm include/seqan/graph_msa -@dirrm include/seqan/graph_align -@dirrm include/seqan/graph_algorithms -@dirrm include/seqan/find_motif -@dirrm include/seqan/find2 -@dirrm include/seqan/find -@dirrm include/seqan/file -@dirrm include/seqan/consensus -@dirrm include/seqan/chaining -@dirrm include/seqan/blast -@dirrm include/seqan/basic -@dirrm include/seqan/align -@dirrm include/seqan Modified: head/biology/tinker/pkg-plist ============================================================================== --- head/biology/tinker/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/tinker/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -607,9 +607,3 @@ bin/xyzsybyl %%DATADIR%%/test/water.run %%DATADIR%%/test/water.xyz %%DATADIR%%/tinker.txt -@dirrm %%DATADIR%%/test -@dirrm %%DATADIR%%/params -@dirrm %%DATADIR%%/bench -@dirrm %%DATADIR%% -%%PORTEXAMPLES%%@dirrm %%EXAMPLESDIR%% -%%PORTDOCS%%@dirrm %%DOCSDIR%% Modified: head/biology/ugene/pkg-plist ============================================================================== --- head/biology/ugene/pkg-plist Mon Oct 20 07:03:48 2014 (r371236) +++ head/biology/ugene/pkg-plist Mon Oct 20 07:10:48 2014 (r371237) @@ -1430,74 +1430,3 @@ share/pixmaps/ugene.xpm %%DATADIR%%/workflow_samples/users/Get the second half of sequence.usa %%DATADIR%%/workflow_samples/users/LinkData Fetch.usa %%DATADIR%%/workflow_samples/users/QualityFilter.usa -@dirrm %%DATADIR%%/workflow_samples/users -@dirrm %%DATADIR%%/workflow_samples/Transcriptomics -@dirrm %%DATADIR%%/workflow_samples/Scenarios -@dirrm %%DATADIR%%/workflow_samples/NGS/tuxedo -@dirrm %%DATADIR%%/workflow_samples/NGS/cistrome -@dirrm %%DATADIR%%/workflow_samples/NGS -@dirrm %%DATADIR%%/workflow_samples/HMMER -@dirrm %%DATADIR%%/workflow_samples/Data merging -@dirrm %%DATADIR%%/workflow_samples/Data marking -@dirrm %%DATADIR%%/workflow_samples/Custom elements -@dirrm %%DATADIR%%/workflow_samples/Conversions -@dirrm %%DATADIR%%/workflow_samples/Alignment -@dirrm %%DATADIR%%/workflow_samples -@dirrm %%DATADIR%%/weight_matrix -@dirrm %%DATADIR%%/snp_scripts -@dirrm %%DATADIR%%/sitecon_models/prokaryotic -@dirrm %%DATADIR%%/sitecon_models/eukaryotic -@dirrm %%DATADIR%%/sitecon_models -@dirrm %%DATADIR%%/samples/Swiss-Prot -@dirrm %%DATADIR%%/samples/Stockholm -@dirrm %%DATADIR%%/samples/SCF -@dirrm %%DATADIR%%/samples/Raw -@dirrm %%DATADIR%%/samples/PDB -@dirrm %%DATADIR%%/samples/Newick -@dirrm %%DATADIR%%/samples/MSF -@dirrm %%DATADIR%%/samples/MMDB -@dirrm %%DATADIR%%/samples/HMM -@dirrm %%DATADIR%%/samples/Genbank -@dirrm %%DATADIR%%/samples/GFF -@dirrm %%DATADIR%%/samples/FASTQ -@dirrm %%DATADIR%%/samples/FASTA -@dirrm %%DATADIR%%/samples/EMBL -@dirrm %%DATADIR%%/samples/CLUSTALW -@dirrm %%DATADIR%%/samples/Assembly -@dirrm %%DATADIR%%/samples/ACE -@dirrm %%DATADIR%%/samples/ABIF -@dirrm %%DATADIR%%/samples -@dirrm %%DATADIR%%/query_samples -@dirrm %%DATADIR%%/primer3 -@dirrm %%DATADIR%%/position_weight_matrix/UniPROBE/PNAS08 -@dirrm %%DATADIR%%/position_weight_matrix/UniPROBE/NBT06 -@dirrm %%DATADIR%%/position_weight_matrix/UniPROBE/GR09 -@dirrm %%DATADIR%%/position_weight_matrix/UniPROBE/Cell08 -@dirrm %%DATADIR%%/position_weight_matrix/UniPROBE -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR/vertebrates -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR/urochordates -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR/plants -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR/nematodes -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR/insects -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR/fungi -@dirrm %%DATADIR%%/position_weight_matrix/JASPAR -@dirrm %%DATADIR%%/position_weight_matrix -%%PORTDOCS%%@dirrm %%DOCSDIR%% -@dirrm %%DATADIR%%/genome_lengths -@dirrm %%DATADIR%%/enzymes -@dirrm %%DATADIR%%/custom_annotations -@dirrm %%DATADIR%%/cmdline -@dirrm %%DATADIR%%/biostruct3d_plugin -@dirrm %%DATADIR%%/back_translation/Yeast -@dirrm %%DATADIR%%/back_translation/Viruses -@dirrm %%DATADIR%%/back_translation/Vertebrates -@dirrm %%DATADIR%%/back_translation/Rodents -@dirrm %%DATADIR%%/back_translation/Primates -@dirrm %%DATADIR%%/back_translation/Plants -@dirrm %%DATADIR%%/back_translation/Mammalia -@dirrm %%DATADIR%%/back_translation/Invertebrates -@dirrm %%DATADIR%%/back_translation/Bacteria -@dirrm %%DATADIR%%/back_translation -@dirrm %%DATADIR%% -@dirrm lib/ugene/plugins -@dirrm lib/ugene
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