diff options
Diffstat (limited to 'biology')
31 files changed, 1259 insertions, 1259 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 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%%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 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%%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 @@ 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-%%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 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+%%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 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+%%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%% |