- Sort pkg-plist before updating to 5.0.0

PR: ports/122437 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
author: Rong-En Fan <rafan@FreeBSD.org> 2008-04-13 07:21:16 +0000
committer: Rong-En Fan <rafan@FreeBSD.org> 2008-04-13 07:21:16 +0000
commit: a0ab9c0e54e345eab09249760190ec9db7902e12 (patch)
tree: 311641ec67e124dbee604c46d678ce44d9c43611 /biology
parent: - Describe better MEMCACHE option (diff)
1 files changed, 888 insertions, 888 deletions
diff --git a/biology/emboss/pkg-plist b/biology/emboss/pkg-plist
index ea98778089e1..12a1a5046e1d 100644
--- a/biology/emboss/pkg-plist
+++ b/biology/emboss/pkg-plist
@@ -25,8 +25,8 @@ bin/cpgplot
 bin/cpgreport
 bin/cusp
 bin/cutgextract
-bin/dan
 bin/cutseq
+bin/dan
 bin/dbiblast
 bin/dbifasta
 bin/dbiflat
@@ -123,6 +123,7 @@ bin/remap
 bin/restover
 bin/restrict
 bin/revseq
+bin/runJemboss.csh
 bin/seealso
 bin/seqmatchall
 bin/seqret
@@ -138,11 +139,11 @@ bin/silent
 bin/sirna
 bin/sixpack
 bin/skipseq
-bin/syco
 bin/splitter
 bin/stretcher
 bin/stssearch
 bin/supermatcher
+bin/syco
 bin/tcode
 bin/textsearch
 bin/tfextract
@@ -163,30 +164,17 @@ bin/wordcount
 bin/wordmatch
 bin/wossname
 bin/yank
-bin/runJemboss.csh
-include/drivers.h
-include/pdf.h
-include/plcore.h
-include/plevent.h
-include/plplotP.h
-include/plxwd.h
-include/metadefs.h
-include/plConfig.h
-include/pldebug.h
-include/plplot.h
-include/plstrm.h
-include/plDevs.h
-include/ajax.h
-include/ajarch.h
-include/ajdefine.h
 include/ajacd.h
 include/ajalign.h
+include/ajarch.h
 include/ajarr.h
 include/ajassert.h
+include/ajax.h
 include/ajbase.h
 include/ajcall.h
 include/ajcod.h
 include/ajdan.h
+include/ajdefine.h
 include/ajdmx.h
 include/ajdomain.h
 include/ajexcept.h
@@ -195,8 +183,8 @@ include/ajfeatdata.h
 include/ajfile.h
 include/ajfmt.h
 include/ajgraph.h
-include/ajgraphxml.h
 include/ajgraphstruct.h
+include/ajgraphxml.h
 include/ajhist.h
 include/ajindex.h
 include/ajjava.h
@@ -229,14 +217,7 @@ include/ajtranslate.h
 include/ajtree.h
 include/ajutil.h
 include/ajvector.h
-include/pcre.h
-include/pcre_chartables.c
-include/pcre_config.h
-include/pcre_get.c
-include/pcre_printint.c
-include/pcre_internal.h
-include/pcreposix.h
-include/emboss.h
+include/drivers.h
 include/embaln.h
 include/embcom.h
 include/embcons.h
@@ -254,234 +235,66 @@ include/embmat.h
 include/embmisc.h
 include/embmol.h
 include/embnmer.h
+include/emboss.h
 include/embpat.h
-include/embprop.h
 include/embpdb.h
+include/embprop.h
 include/embread.h
-include/embsig.h
 include/embshow.h
+include/embsig.h
 include/embword.h
-lib/libplplot.so.5
-lib/libplplot.so
-lib/libplplot.la
-lib/libplplot.a
-lib/libajax.so.3
-lib/libajax.so
-lib/libajax.la
+include/metadefs.h
+include/pcre.h
+include/pcre_chartables.c
+include/pcre_config.h
+include/pcre_get.c
+include/pcre_internal.h
+include/pcre_printint.c
+include/pcreposix.h
+include/pdf.h
+include/plConfig.h
+include/plDevs.h
+include/plcore.h
+include/pldebug.h
+include/plevent.h
+include/plplot.h
+include/plplotP.h
+include/plstrm.h
+include/plxwd.h
 lib/libajax.a
-lib/libajaxg.so.3
-lib/libajaxg.so
-lib/libajaxg.la
+lib/libajax.la
+lib/libajax.so
+lib/libajax.so.3
 lib/libajaxg.a
-lib/libnucleus.so.3
-lib/libnucleus.so
-lib/libnucleus.la
+lib/libajaxg.la
+lib/libajaxg.so
+lib/libajaxg.so.3
 lib/libnucleus.a
-%%PORTDOCS%%%%DOCSDIR%%/manuals/admin.sty
-%%PORTDOCS%%%%DOCSDIR%%/manuals/admin.tex
+lib/libnucleus.la
+lib/libnucleus.so
+lib/libnucleus.so.3
+lib/libplplot.a
+lib/libplplot.la
+lib/libplplot.so
+lib/libplplot.so.5
+%%PORTDOCS%%%%DOCSDIR%%/manuals/EMBOSS-FreeBSD-HOWTO.txt
 %%PORTDOCS%%%%DOCSDIR%%/manuals/admin.aux
 %%PORTDOCS%%%%DOCSDIR%%/manuals/admin.dvi
 %%PORTDOCS%%%%DOCSDIR%%/manuals/admin.log
 %%PORTDOCS%%%%DOCSDIR%%/manuals/admin.pdf
 %%PORTDOCS%%%%DOCSDIR%%/manuals/admin.ps
+%%PORTDOCS%%%%DOCSDIR%%/manuals/admin.sty
+%%PORTDOCS%%%%DOCSDIR%%/manuals/admin.tex
 %%PORTDOCS%%%%DOCSDIR%%/manuals/admin.toc
 %%PORTDOCS%%%%DOCSDIR%%/manuals/adminguide.tar.gz
 %%PORTDOCS%%%%DOCSDIR%%/manuals/domainatrix.doc
-%%PORTDOCS%%%%DOCSDIR%%/manuals/program.ps.gz
-%%PORTDOCS%%%%DOCSDIR%%/manuals/EMBOSS-FreeBSD-HOWTO.txt
+%%PORTDOCS%%%%DOCSDIR%%/manuals/emboss.sty
 %%PORTDOCS%%%%DOCSDIR%%/manuals/emboss_qg.pdf
 %%PORTDOCS%%%%DOCSDIR%%/manuals/emboss_qg.ps
-%%PORTDOCS%%%%DOCSDIR%%/manuals/emboss.sty
 %%PORTDOCS%%%%DOCSDIR%%/manuals/fdl.txt
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/lindna.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/listor.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/marscan.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/maskfeat.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/maskseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/matcher.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/matgen3d.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/megamerger.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/meme.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/menus_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/merger.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/msbar.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/mse.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/mwcontam.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/mwfilter.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/myseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nawalign.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nawalignrunner.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/needle.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/needlerunner.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/newcpgreport.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/newcpgseek.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/newseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/noreturn.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/notseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nthseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_2d_structure_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_codon_usage_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_codon_usage_nucleic_gene_finding_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_composition_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_cpg_islands_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_gene_finding_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_motifs_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_mutation_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_primers_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_profiles_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_repeats_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_restriction_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_transcription_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/nucleic_translation_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/octanol.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/oddcomp.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/palindrome.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pasteseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/patmatdb.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/patmatmotifs.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pdbparse.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pdbplus.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pdbtosp.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepcoil.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepinfo.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepnet.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepstats.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepwheel.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepwindow.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepwindowall.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_consensus_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_continuous_characters_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_discrete_characters_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_distance_matrix_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_gene_frequencies_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_molecular_sequence_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/phylogeny_tree_drawing_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/plotcon.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/plotorf.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/polydot.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/preg.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prettyplot.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prettyseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/primersearch.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/printsextract.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/profit.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prophecy.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prophet.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prosextract.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_2d_structure_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_3d_structure_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_composition_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_motifs_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_mutation_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_profiles_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/protein_sequence_alignment_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pscan.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/psiphi.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/rebaseextract.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/recoder.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/redata.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/remap.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/restover.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/restrict.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/revseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/rocon.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/rocplot.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/scope.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/scopparse.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/scorecmapdir.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/scorer.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/scorerrunner.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seealso.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqalign.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqfraggle.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqmatchall.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqnr.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqret.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqretsplit.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqsearch.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqsort.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/seqwords.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/showalign.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/showdb.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/showfeat.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/showorf.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/showseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/shuffleseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/sigcleave.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/siggen.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/siggenlig.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/sigscan.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/sigscanlig.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/silent.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/sirna.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/sites.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/sixpack.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/skipseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/splitter.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/ssematch.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/stretcher.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/stssearch.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/substitute.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/substituterunner.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/supermatcher.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/syco.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tcode.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/template.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/test_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/textsearch.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tfextract.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tfm.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tfscan.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tmap.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/topo.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tranalign.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/transeq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/trimest.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/trimseq.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/twofeat.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/union.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/utils_database_creation_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/utils_database_indexing_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/utils_misc_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/vectorstrip.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/water.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/whichdb.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/wobble.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/wordcount.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/wordmatch.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/wossname.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/yank.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/emboss_icon.jpg
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/abiview.1.abiview.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/chaos.1.chaos.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/cirdna.1.cirdna.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/cpgplot.1.cpgplot.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/dan.2.dan.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/dotmatcher.1.dotmatcher.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/dotpath.1.dotpath.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/dottup.1.dottup.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/emboss_icon.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/findkm.1.findkm.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/isochore.1.isochore.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/lindna.1.lindna.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/octanol.1.octanol.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepinfo.1.pepinfo.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepnet.1.pepnet.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepwheel.1.pepwheel.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepwindow.1.pepwindow.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/pepwindowall.1.pepwindowall.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/plotcon.1.plotcon.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/plotorf.1.plotorf.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/plotorf.2.plotorf.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/polydot.1.polydot.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prettyplot.1.prettyplot.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/prettyplot.2.prettyplot.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/syco.1.syco.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/tmap.1.tmap.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/topo.gif
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/wobble.1.wobble.gif
+%%PORTDOCS%%%%DOCSDIR%%/manuals/program.ps.gz
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/aaindexextract.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/abiview.1.abiview.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/abiview.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/acd_group.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/acdc.html
@@ -494,22 +307,24 @@ lib/libnucleus.a
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignment_consensus_group.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignment_differences_group.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignment_dot_plots_group.html
-%%PORTDOCS%%%%DOCSDIR%%/programs/html/antigenic.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignment_global_group.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignment_local_group.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignment_multiple_group.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/alignrunner.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/allversusall.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/antigenic.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/backtranseq.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/banana.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/biosed.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/btwisted.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cai.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cathparse.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/chaos.1.chaos.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/chaos.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/charge.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/checktrans.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/chips.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/cirdna.1.cirdna.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cirdna.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/codcmp.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/codcopy.html
@@ -519,12 +334,14 @@ lib/libnucleus.a
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cons.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/contactalign.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/contacts.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/cpgplot.1.cpgplot.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cpgplot.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cpgreport.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/crystalball.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cusp.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cutgextract.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/cutseq.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/dan.2.dan.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dan.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dbiblast.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dbifasta.html
@@ -547,8 +364,11 @@ lib/libnucleus.a
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/domainreso.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/domainseqs.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/domainsse.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/dotmatcher.1.dotmatcher.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dotmatcher.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/dotpath.1.dotpath.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dotpath.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/dottup.1.dottup.gif
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dottup.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/dreg.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/ealistat.html
@@ -580,6 +400,8 @@ lib/libnucleus.a
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/ehmmsearch.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/einverted.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/ekitsch.html
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/emboss_icon.gif
+%%PORTDOCS%%%%DOCSDIR%%/programs/html/emboss_icon.jpg
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/embossdata.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/embossversion.html
 %%PORTDOCS%%%%DOCSDIR%%/programs/html/emix.html
@@ -625,6 +447,7 @@ lib/libnucleus.a
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 %%PORTDOCS%%%%DOCSDIR%%/tutorials/emboss-gcg.ppt
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-%%DATADIR%%/acd/knowntypes.standard
-%%DATADIR%%/acd/sections.standard
-%%DATADIR%%/acd/variables.standard
 %%DATADIR%%/acd/aaindexextract.acd
 %%DATADIR%%/acd/abiview.acd
 %%DATADIR%%/acd/acdc.acd
@@ -1078,10 +978,10 @@ lib/libnucleus.a
 %%DATADIR%%/acd/ajtest.acd
 %%DATADIR%%/acd/antigenic.acd
 %%DATADIR%%/acd/backtranseq.acd
-%%DATADIR%%/acd/cai.acd
 %%DATADIR%%/acd/banana.acd
 %%DATADIR%%/acd/biosed.acd
 %%DATADIR%%/acd/btwisted.acd
+%%DATADIR%%/acd/cai.acd
 %%DATADIR%%/acd/chaos.acd
 %%DATADIR%%/acd/charge.acd
 %%DATADIR%%/acd/checktrans.acd
@@ -1090,6 +990,7 @@ lib/libnucleus.a
 %%DATADIR%%/acd/codcmp.acd
 %%DATADIR%%/acd/codcopy.acd
 %%DATADIR%%/acd/coderet.acd
+%%DATADIR%%/acd/codes.english
 %%DATADIR%%/acd/complex.acd
 %%DATADIR%%/acd/compseq.acd
 %%DATADIR%%/acd/cons.acd
@@ -1125,7 +1026,6 @@ lib/libnucleus.a
 %%DATADIR%%/acd/dreg.acd
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-%%DATADIR%%/acd/iep.acd
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@@ -1147,15 +1047,18 @@ lib/libnucleus.a
 %%DATADIR%%/acd/geecee.acd
 %%DATADIR%%/acd/getorf.acd
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+%%DATADIR%%/acd/groups.standard
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-%%DATADIR%%/acd/hmoment.acd
 %%DATADIR%%/acd/histogramtest.acd
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+%%DATADIR%%/acd/knowntypes.standard
 %%DATADIR%%/acd/lindna.acd
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@@ -1167,177 +1070,218 @@ lib/libnucleus.a
 %%DATADIR%%/acd/msbar.acd
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-%%DATADIR%%/data/CODONS/Eerwct.cut
-%%DATADIR%%/data/CODONS/Ehaein.cut
-%%DATADIR%%/data/CODONS/Ehalma.cut
-%%DATADIR%%/data/CODONS/Ehalsa.cut
-%%DATADIR%%/data/CODONS/Ehorvu.cut
-%%DATADIR%%/data/CODONS/Ehuman.cut
-%%DATADIR%%/data/CODONS/Eklepn.cut
-%%DATADIR%%/data/CODONS/Eklula.cut
-%%DATADIR%%/data/CODONS/Elacdl.cut
-%%DATADIR%%/data/CODONS/Elyces.cut
-%%DATADIR%%/data/CODONS/Emacfa.cut
-%%DATADIR%%/data/CODONS/Emaize.cut
-%%DATADIR%%/data/CODONS/Emaize_chl.cut
-%%DATADIR%%/data/CODONS/Emammal_high.cut
-%%DATADIR%%/data/CODONS/Emanse.cut
-%%DATADIR%%/data/CODONS/Emarpo_chl.cut
-%%DATADIR%%/data/CODONS/Emedsa.cut
-%%DATADIR%%/data/CODONS/Emetth.cut
-%%DATADIR%%/data/CODONS/Emouse.cut
-%%DATADIR%%/data/CODONS/Emyctu.cut
-%%DATADIR%%/data/CODONS/Eneigo.cut
-%%DATADIR%%/data/CODONS/Eneucr.cut
-%%DATADIR%%/data/CODONS/Eoncmy.cut
-%%DATADIR%%/data/CODONS/Eorysa.cut
-%%DATADIR%%/data/CODONS/Eorysa_chl.cut
-%%DATADIR%%/data/CODONS/Epea.cut
-%%DATADIR%%/data/CODONS/Epethy.cut
-%%DATADIR%%/data/CODONS/Ephavu.cut
-%%DATADIR%%/data/CODONS/Epig.cut
-%%DATADIR%%/data/CODONS/Eplafa.cut
-%%DATADIR%%/data/CODONS/Eprovu.cut
-%%DATADIR%%/data/CODONS/Epseae.cut
-%%DATADIR%%/data/CODONS/Epsepu.cut
-%%DATADIR%%/data/CODONS/Epsesm.cut
-%%DATADIR%%/data/CODONS/Erabit.cut
-%%DATADIR%%/data/CODONS/Erat.cut
-%%DATADIR%%/data/CODONS/Erhile.cut
-%%DATADIR%%/data/CODONS/Erhime.cut
-%%DATADIR%%/data/CODONS/Erhoca.cut
-%%DATADIR%%/data/CODONS/Erhosh.cut
-%%DATADIR%%/data/CODONS/Esalsa.cut
-%%DATADIR%%/data/CODONS/Esalty.cut
-%%DATADIR%%/data/CODONS/Eschma.cut
-%%DATADIR%%/data/CODONS/Eschpo.cut
-%%DATADIR%%/data/CODONS/Eschpo_cai.cut
-%%DATADIR%%/data/CODONS/Eschpo_high.cut
-%%DATADIR%%/data/CODONS/Eserma.cut
-%%DATADIR%%/data/CODONS/Esheep.cut
-%%DATADIR%%/data/CODONS/Esoltu.cut
-%%DATADIR%%/data/CODONS/Esoybn.cut
-%%DATADIR%%/data/CODONS/Espiol.cut
-%%DATADIR%%/data/CODONS/Estaau.cut
-%%DATADIR%%/data/CODONS/Estrco.cut
-%%DATADIR%%/data/CODONS/Estrmu.cut
-%%DATADIR%%/data/CODONS/Estrpn.cut
-%%DATADIR%%/data/CODONS/Estrpu.cut
-%%DATADIR%%/data/CODONS/Esyncy.cut
-%%DATADIR%%/data/CODONS/Esynco.cut
-%%DATADIR%%/data/CODONS/Etetth.cut
-%%DATADIR%%/data/CODONS/Etheth.cut
-%%DATADIR%%/data/CODONS/Etobac.cut
-%%DATADIR%%/data/CODONS/Etobac_chl.cut
-%%DATADIR%%/data/CODONS/Etrybr.cut
-%%DATADIR%%/data/CODONS/Etrycr.cut
-%%DATADIR%%/data/CODONS/Evibch.cut
-%%DATADIR%%/data/CODONS/Ewheat.cut
-%%DATADIR%%/data/CODONS/Exenla.cut
-%%DATADIR%%/data/CODONS/Eyeast.cut
-%%DATADIR%%/data/CODONS/Eyeast_cai.cut
-%%DATADIR%%/data/CODONS/Eyeast_high.cut
-%%DATADIR%%/data/CODONS/Eyeast_mit.cut
-%%DATADIR%%/data/CODONS/Eyeren.cut
-%%DATADIR%%/data/CODONS/Eyerpe.cut
 %%DATADIR%%/data/CODONS/Eacc.cut
+%%DATADIR%%/data/CODONS/Eacica.cut
 %%DATADIR%%/data/CODONS/Eadenovirus5.cut
 %%DATADIR%%/data/CODONS/Eadenovirus7.cut
+%%DATADIR%%/data/CODONS/Eagrtu.cut
 %%DATADIR%%/data/CODONS/Eaidlav.cut
+%%DATADIR%%/data/CODONS/Eanasp.cut
 %%DATADIR%%/data/CODONS/Eani.cut
 %%DATADIR%%/data/CODONS/Eani_h.cut
 %%DATADIR%%/data/CODONS/Eanidmit.cut
+%%DATADIR%%/data/CODONS/Earath.cut
 %%DATADIR%%/data/CODONS/Easn.cut
 %%DATADIR%%/data/CODONS/Eath.cut
 %%DATADIR%%/data/CODONS/Eatu.cut
 %%DATADIR%%/data/CODONS/Eavi.cut
-%%DATADIR%%/data/CODONS/Ef1.cut
+%%DATADIR%%/data/CODONS/Eazovi.cut
+%%DATADIR%%/data/CODONS/Ebacme.cut
+%%DATADIR%%/data/CODONS/Ebacst.cut
+%%DATADIR%%/data/CODONS/Ebacsu.cut
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 %%DATADIR%%/data/CODONS/Ebja.cut
 %%DATADIR%%/data/CODONS/Ebly.cut
 %%DATADIR%%/data/CODONS/Ebme.cut
 %%DATADIR%%/data/CODONS/Ebmo.cut
 %%DATADIR%%/data/CODONS/Ebna.cut
+%%DATADIR%%/data/CODONS/Ebommo.cut
 %%DATADIR%%/data/CODONS/Ebov.cut
+%%DATADIR%%/data/CODONS/Ebovin.cut
 %%DATADIR%%/data/CODONS/Ebovsp.cut
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+%%DATADIR%%/data/CODONS/Ebrana.cut
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 %%DATADIR%%/data/CODONS/Ebst.cut
 %%DATADIR%%/data/CODONS/Ebsu.cut
 %%DATADIR%%/data/CODONS/Ebsu_h.cut
 %%DATADIR%%/data/CODONS/Ecac.cut
+%%DATADIR%%/data/CODONS/Ecaeel.cut
 %%DATADIR%%/data/CODONS/Ecal.cut
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 %%DATADIR%%/data/CODONS/Eccr.cut
 %%DATADIR%%/data/CODONS/Ecel.cut
 %%DATADIR%%/data/CODONS/Echi.cut
+%%DATADIR%%/data/CODONS/Echick.cut
 %%DATADIR%%/data/CODONS/Echicken.cut
 %%DATADIR%%/data/CODONS/Echisp.cut
 %%DATADIR%%/data/CODONS/Echk.cut
+%%DATADIR%%/data/CODONS/Echlre.cut
+%%DATADIR%%/data/CODONS/Echltr.cut
 %%DATADIR%%/data/CODONS/Echmp.cut
 %%DATADIR%%/data/CODONS/Echnt.cut
 %%DATADIR%%/data/CODONS/Echos.cut
 %%DATADIR%%/data/CODONS/Echzm.cut
 %%DATADIR%%/data/CODONS/Echzmrubp.cut
+%%DATADIR%%/data/CODONS/Ecloab.cut
 %%DATADIR%%/data/CODONS/Ecpx.cut
 %%DATADIR%%/data/CODONS/Ecre.cut
+%%DATADIR%%/data/CODONS/Ecrigr.cut
 %%DATADIR%%/data/CODONS/Ecrisp.cut
 %%DATADIR%%/data/CODONS/Ectr.cut
+%%DATADIR%%/data/CODONS/Ecyapa.cut
+%%DATADIR%%/data/CODONS/Edayhoff.cut
 %%DATADIR%%/data/CODONS/Eddi.cut
 %%DATADIR%%/data/CODONS/Eddi_h.cut
+%%DATADIR%%/data/CODONS/Edicdi.cut
+%%DATADIR%%/data/CODONS/Edicdi_high.cut
 %%DATADIR%%/data/CODONS/Edog.cut
 %%DATADIR%%/data/CODONS/Edro.cut
 %%DATADIR%%/data/CODONS/Edro_h.cut
+%%DATADIR%%/data/CODONS/Edrome.cut
+%%DATADIR%%/data/CODONS/Edrome_high.cut
 %%DATADIR%%/data/CODONS/Edrosophila.cut
 %%DATADIR%%/data/CODONS/Eeca.cut
 %%DATADIR%%/data/CODONS/Eeco.cut
 %%DATADIR%%/data/CODONS/Eeco_h.cut
+%%DATADIR%%/data/CODONS/Eecoli.cut
+%%DATADIR%%/data/CODONS/Eecoli_high.cut
+%%DATADIR%%/data/CODONS/Eemeni.cut
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+%%DATADIR%%/data/CODONS/Eerwct.cut
+%%DATADIR%%/data/CODONS/Ef1.cut
 %%DATADIR%%/data/CODONS/Efish.cut
 %%DATADIR%%/data/CODONS/Efmdvpolyp.cut
+%%DATADIR%%/data/CODONS/Ehaein.cut
+%%DATADIR%%/data/CODONS/Ehalma.cut
+%%DATADIR%%/data/CODONS/Ehalsa.cut
 %%DATADIR%%/data/CODONS/Eham.cut
 %%DATADIR%%/data/CODONS/Ehha.cut
 %%DATADIR%%/data/CODONS/Ehin.cut
 %%DATADIR%%/data/CODONS/Ehma.cut
+%%DATADIR%%/data/CODONS/Ehorvu.cut
 %%DATADIR%%/data/CODONS/Ehum.cut
+%%DATADIR%%/data/CODONS/Ehuman.cut
 %%DATADIR%%/data/CODONS/Ekla.cut
+%%DATADIR%%/data/CODONS/Eklepn.cut
+%%DATADIR%%/data/CODONS/Eklula.cut
 %%DATADIR%%/data/CODONS/Ekpn.cut
+%%DATADIR%%/data/CODONS/Elacdl.cut
 %%DATADIR%%/data/CODONS/Ella.cut
+%%DATADIR%%/data/CODONS/Elyces.cut
 %%DATADIR%%/data/CODONS/Emac.cut
+%%DATADIR%%/data/CODONS/Emacfa.cut
+%%DATADIR%%/data/CODONS/Emaize.cut
+%%DATADIR%%/data/CODONS/Emaize_chl.cut
 %%DATADIR%%/data/CODONS/Emam_h.cut
+%%DATADIR%%/data/CODONS/Emammal_high.cut
+%%DATADIR%%/data/CODONS/Emanse.cut
+%%DATADIR%%/data/CODONS/Emarpo_chl.cut
+%%DATADIR%%/data/CODONS/Emedsa.cut
+%%DATADIR%%/data/CODONS/Emetth.cut
 %%DATADIR%%/data/CODONS/Emixlg.cut
+%%DATADIR%%/data/CODONS/Emouse.cut
 %%DATADIR%%/data/CODONS/Emsa.cut
 %%DATADIR%%/data/CODONS/Emse.cut
 %%DATADIR%%/data/CODONS/Emta.cut
@@ -1345,40 +1289,69 @@ lib/libnucleus.a
 %%DATADIR%%/data/CODONS/Emus.cut
 %%DATADIR%%/data/CODONS/Emussp.cut
 %%DATADIR%%/data/CODONS/Emva.cut
+%%DATADIR%%/data/CODONS/Emyctu.cut
 %%DATADIR%%/data/CODONS/Emze.cut
 %%DATADIR%%/data/CODONS/Emzecp.cut
 %%DATADIR%%/data/CODONS/Encr.cut
+%%DATADIR%%/data/CODONS/Eneigo.cut
 %%DATADIR%%/data/CODONS/Eneu.cut
+%%DATADIR%%/data/CODONS/Eneucr.cut
 %%DATADIR%%/data/CODONS/Engo.cut
+%%DATADIR%%/data/CODONS/Eoncmy.cut
 %%DATADIR%%/data/CODONS/Eoncsp.cut
+%%DATADIR%%/data/CODONS/Eorysa.cut
+%%DATADIR%%/data/CODONS/Eorysa_chl.cut
 %%DATADIR%%/data/CODONS/Epae.cut
+%%DATADIR%%/data/CODONS/Epea.cut
 %%DATADIR%%/data/CODONS/Epet.cut
+%%DATADIR%%/data/CODONS/Epethy.cut
 %%DATADIR%%/data/CODONS/Epfa.cut
+%%DATADIR%%/data/CODONS/Ephavu.cut
 %%DATADIR%%/data/CODONS/Ephix174.cut
 %%DATADIR%%/data/CODONS/Ephv.cut
 %%DATADIR%%/data/CODONS/Ephy.cut
+%%DATADIR%%/data/CODONS/Epig.cut
+%%DATADIR%%/data/CODONS/Eplafa.cut
 %%DATADIR%%/data/CODONS/Epolyomaa2.cut
 %%DATADIR%%/data/CODONS/Epombe.cut
 %%DATADIR%%/data/CODONS/Epombecai.cut
 %%DATADIR%%/data/CODONS/Epot.cut
 %%DATADIR%%/data/CODONS/Eppu.cut
+%%DATADIR%%/data/CODONS/Eprovu.cut
 %%DATADIR%%/data/CODONS/Epse.cut
+%%DATADIR%%/data/CODONS/Epseae.cut
+%%DATADIR%%/data/CODONS/Epsepu.cut
+%%DATADIR%%/data/CODONS/Epsesm.cut
 %%DATADIR%%/data/CODONS/Epsy.cut
 %%DATADIR%%/data/CODONS/Epvu.cut
 %%DATADIR%%/data/CODONS/Erab.cut
 %%DATADIR%%/data/CODONS/Erabbit.cut
+%%DATADIR%%/data/CODONS/Erabit.cut
 %%DATADIR%%/data/CODONS/Erabsp.cut
+%%DATADIR%%/data/CODONS/Erat.cut
 %%DATADIR%%/data/CODONS/Eratsp.cut
 %%DATADIR%%/data/CODONS/Erca.cut
+%%DATADIR%%/data/CODONS/Erhile.cut
+%%DATADIR%%/data/CODONS/Erhime.cut
 %%DATADIR%%/data/CODONS/Erhm.cut
+%%DATADIR%%/data/CODONS/Erhoca.cut
+%%DATADIR%%/data/CODONS/Erhosh.cut
 %%DATADIR%%/data/CODONS/Eric.cut
 %%DATADIR%%/data/CODONS/Erle.cut
 %%DATADIR%%/data/CODONS/Erme.cut
 %%DATADIR%%/data/CODONS/Ersp.cut
+%%DATADIR%%/data/CODONS/Esalsa.cut
 %%DATADIR%%/data/CODONS/Esalsp.cut
+%%DATADIR%%/data/CODONS/Esalty.cut
 %%DATADIR%%/data/CODONS/Esau.cut
+%%DATADIR%%/data/CODONS/Eschma.cut
+%%DATADIR%%/data/CODONS/Eschpo.cut
+%%DATADIR%%/data/CODONS/Eschpo_cai.cut
+%%DATADIR%%/data/CODONS/Eschpo_high.cut
 %%DATADIR%%/data/CODONS/Esco.cut
+%%DATADIR%%/data/CODONS/Eserma.cut
 %%DATADIR%%/data/CODONS/Esgi.cut
+%%DATADIR%%/data/CODONS/Esheep.cut
 %%DATADIR%%/data/CODONS/Eshp.cut
 %%DATADIR%%/data/CODONS/Eshpsp.cut
 %%DATADIR%%/data/CODONS/Esli.cut
@@ -1386,41 +1359,63 @@ lib/libnucleus.a
 %%DATADIR%%/data/CODONS/Esma.cut
 %%DATADIR%%/data/CODONS/Esmi.cut
 %%DATADIR%%/data/CODONS/Esmu.cut
+%%DATADIR%%/data/CODONS/Esoltu.cut
 %%DATADIR%%/data/CODONS/Esoy.cut
+%%DATADIR%%/data/CODONS/Esoybn.cut
 %%DATADIR%%/data/CODONS/Espi.cut
+%%DATADIR%%/data/CODONS/Espiol.cut
 %%DATADIR%%/data/CODONS/Espn.cut
 %%DATADIR%%/data/CODONS/Espo.cut
 %%DATADIR%%/data/CODONS/Espo_h.cut
 %%DATADIR%%/data/CODONS/Espu.cut
 %%DATADIR%%/data/CODONS/Esta.cut
+%%DATADIR%%/data/CODONS/Estaau.cut
+%%DATADIR%%/data/CODONS/Estrco.cut
+%%DATADIR%%/data/CODONS/Estrmu.cut
+%%DATADIR%%/data/CODONS/Estrpn.cut
+%%DATADIR%%/data/CODONS/Estrpu.cut
 %%DATADIR%%/data/CODONS/Esty.cut
 %%DATADIR%%/data/CODONS/Esus.cut
 %%DATADIR%%/data/CODONS/Esv40.cut
 %%DATADIR%%/data/CODONS/Esyhsp.cut
+%%DATADIR%%/data/CODONS/Esynco.cut
+%%DATADIR%%/data/CODONS/Esyncy.cut
 %%DATADIR%%/data/CODONS/Esynsp.cut
 %%DATADIR%%/data/CODONS/Etbr.cut
 %%DATADIR%%/data/CODONS/Etcr.cut
 %%DATADIR%%/data/CODONS/Eter.cut
 %%DATADIR%%/data/CODONS/Etetsp.cut
+%%DATADIR%%/data/CODONS/Etetth.cut
+%%DATADIR%%/data/CODONS/Etheth.cut
 %%DATADIR%%/data/CODONS/Etob.cut
+%%DATADIR%%/data/CODONS/Etobac.cut
+%%DATADIR%%/data/CODONS/Etobac_chl.cut
 %%DATADIR%%/data/CODONS/Etobcp.cut
 %%DATADIR%%/data/CODONS/Etom.cut
 %%DATADIR%%/data/CODONS/Etrb.cut
+%%DATADIR%%/data/CODONS/Etrybr.cut
+%%DATADIR%%/data/CODONS/Etrycr.cut
 %%DATADIR%%/data/CODONS/Evco.cut
+%%DATADIR%%/data/CODONS/Evibch.cut
+%%DATADIR%%/data/CODONS/Ewheat.cut
 %%DATADIR%%/data/CODONS/Ewht.cut
 %%DATADIR%%/data/CODONS/Exel.cut
+%%DATADIR%%/data/CODONS/Exenla.cut
 %%DATADIR%%/data/CODONS/Exenopus.cut
+%%DATADIR%%/data/CODONS/Eyeast.cut
+%%DATADIR%%/data/CODONS/Eyeast_cai.cut
+%%DATADIR%%/data/CODONS/Eyeast_high.cut
+%%DATADIR%%/data/CODONS/Eyeast_mit.cut
 %%DATADIR%%/data/CODONS/Eyeastcai.cut
 %%DATADIR%%/data/CODONS/Eyen.cut
+%%DATADIR%%/data/CODONS/Eyeren.cut
+%%DATADIR%%/data/CODONS/Eyerpe.cut
 %%DATADIR%%/data/CODONS/Eysc.cut
 %%DATADIR%%/data/CODONS/Eysc_h.cut
 %%DATADIR%%/data/CODONS/Eyscmt.cut
 %%DATADIR%%/data/CODONS/Eysp.cut
 %%DATADIR%%/data/CODONS/Ezebrafish.cut
 %%DATADIR%%/data/CODONS/Ezma.cut
-%%DATADIR%%/data/REBASE/dummyfile
-%%DATADIR%%/data/PRINTS/dummyfile
-%%DATADIR%%/data/PROSITE/dummyfile
 %%DATADIR%%/data/EBLOSUM30
 %%DATADIR%%/data/EBLOSUM35
 %%DATADIR%%/data/EBLOSUM40
@@ -1533,7 +1528,10 @@ lib/libnucleus.a
 %%DATADIR%%/data/Ehet.dat
 %%DATADIR%%/data/Ehth.dat
 %%DATADIR%%/data/Ehth87.dat
+%%DATADIR%%/data/Emass.dat
+%%DATADIR%%/data/Emassmod.dat
 %%DATADIR%%/data/Ememe.dat
+%%DATADIR%%/data/Emwfilter.dat
 %%DATADIR%%/data/Enakai.dat
 %%DATADIR%%/data/Epepcoil.dat
 %%DATADIR%%/data/Epk.dat
@@ -1552,215 +1550,41 @@ lib/libnucleus.a
 %%DATADIR%%/data/Etcode.dat
 %%DATADIR%%/data/Evdw.dat
 %%DATADIR%%/data/Ewhite-wimley.dat
-%%DATADIR%%/data/embossre.equ
-%%DATADIR%%/data/Emwfilter.dat
-%%DATADIR%%/data/Emass.dat
-%%DATADIR%%/data/Emassmod.dat
 %%DATADIR%%/data/Matrices.nucleotide
 %%DATADIR%%/data/Matrices.protein
 %%DATADIR%%/data/Matrices.proteinstructure
+%%DATADIR%%/data/PRINTS/dummyfile
+%%DATADIR%%/data/PROSITE/dummyfile
+%%DATADIR%%/data/REBASE/dummyfile
+%%DATADIR%%/data/embossre.equ
 %%DATADIR%%/emboss.default.template
-%%DATADIR%%/test/data/aaindex1.test
-%%DATADIR%%/test/data/prosite.dat
-%%DATADIR%%/test/data/prosite.doc
-%%DATADIR%%/test/data/prints.test
-%%DATADIR%%/test/data/withrefm
-%%DATADIR%%/test/data/site.dat
-%%DATADIR%%/test/data/cutg.codon
-%%DATADIR%%/test/data/dna.acedb
-%%DATADIR%%/test/data/dna.aln
-%%DATADIR%%/test/data/dna.asn1
-%%DATADIR%%/test/data/dna.codata
-%%DATADIR%%/test/data/dna.embl
-%%DATADIR%%/test/data/dna.fasta
-%%DATADIR%%/test/data/dna.fitch
-%%DATADIR%%/test/data/dna.gcg
-%%DATADIR%%/test/data/dna.gcg8
-%%DATADIR%%/test/data/dna.genbank
-%%DATADIR%%/test/data/dna.ig
-%%DATADIR%%/test/data/dna.m-acedb
-%%DATADIR%%/test/data/dna.m-codata
-%%DATADIR%%/test/data/dna.m-embl
-%%DATADIR%%/test/data/dna.m-fasta
-%%DATADIR%%/test/data/dna.m-fasta-long
-%%DATADIR%%/test/data/dna.m-ncbi
-%%DATADIR%%/test/data/dna.m-strider
-%%DATADIR%%/test/data/dna.msf
-%%DATADIR%%/test/data/dna.msf8
-%%DATADIR%%/test/data/dna.ncbi
-%%DATADIR%%/test/data/dna.phylip
-%%DATADIR%%/test/data/dna.phylip3
-%%DATADIR%%/test/data/dna.staden
-%%DATADIR%%/test/data/dna.strider
-%%DATADIR%%/test/data/dna.text
-%%DATADIR%%/test/data/feat.emft
-%%DATADIR%%/test/data/feat.fasta
-%%DATADIR%%/test/data/feat.pir
-%%DATADIR%%/test/data/mw1.dat
-%%DATADIR%%/test/data/mw2.dat
-%%DATADIR%%/test/data/mw3.dat
-%%DATADIR%%/test/data/paamir.pep
-%%DATADIR%%/test/data/pax6_cdna.fasta
-%%DATADIR%%/test/data/prot.acedb
-%%DATADIR%%/test/data/prot.codata
-%%DATADIR%%/test/data/prot.fasta
-%%DATADIR%%/test/data/prot.gcg
-%%DATADIR%%/test/data/prot.gcg8
-%%DATADIR%%/test/data/prot.ig
-%%DATADIR%%/test/data/prot.m-acedb
-%%DATADIR%%/test/data/prot.m-codata
-%%DATADIR%%/test/data/prot.m-fasta
-%%DATADIR%%/test/data/prot.m-nbrf
-%%DATADIR%%/test/data/prot.m-ncbi
-%%DATADIR%%/test/data/prot.m-swiss
-%%DATADIR%%/test/data/prot.nbrf
-%%DATADIR%%/test/data/prot.ncbi
-%%DATADIR%%/test/data/prot.swiss
-%%DATADIR%%/test/data/prot.text
-%%DATADIR%%/test/data/z83307.seq
-%%DATADIR%%/test/data/aligna.dna
-%%DATADIR%%/test/data/alignapart.dna
-%%DATADIR%%/test/data/alignb.dna
-%%DATADIR%%/test/data/aligna.prot
-%%DATADIR%%/test/data/alignapart.prot
-%%DATADIR%%/test/data/alignb.prot
-%%DATADIR%%/test/data/tranalign.pep
-%%DATADIR%%/test/data/tranalign.seq
-%%DATADIR%%/test/embl/acnum.hit
-%%DATADIR%%/test/embl/acnum.trg
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+%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/MultiLineToolTipUI.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/PlafMacros.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/ReportFormat.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/SectionPanel.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/Separator.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/SetInFileCard.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/SetOutFileCard.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/TextFieldFloat.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/TextFieldInt.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/TextFieldSink.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/JembossComboPopup.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/MultiLineToolTipUI.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/PlafMacros.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/ReportFormat.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/AlignFormat.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/ApplicationNamePanel.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/LabelTextBox.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/form/Separator.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/sequenceChooser/CutNPasteTextArea.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/sequenceChooser/FileChooser.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/sequenceChooser/InputSequenceAttributes.java
@@ -1927,32 +1753,15 @@ lib/libnucleus.a
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/sequenceChooser/TextAreaSink.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/gui/startup/Database.java
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-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/AdvancedOptions.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/ResultsMenuBar.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/ShowResultSet.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/BuildProgramMenu.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/SequenceData.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/ShowSavedResults.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/LaunchJalView.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/SequenceList.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/SwingWorker.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/MemoryComboBox.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/SetUpMenuBar.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/Browser.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/SplashThread.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/ScrollPanel.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/ImageIconJPanel.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/Favorites.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/gui/KeywordSearch.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/parser/acd/ApplicationFields.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/parser/acd/ApplicationParam.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/parser/AcdFunResolve.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/parser/AcdVariableResolve.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/parser/AcdVarResolve.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/parser/AcdVariableResolve.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/parser/Ajax.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/parser/AjaxUtil.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/parser/Dependent.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/parser/ParseAcd.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/parser/acd/ApplicationFields.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/parser/acd/ApplicationParam.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/programs/BatchUpdateTimer.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/programs/JembossProcess.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/programs/ListFile.java
@@ -1960,52 +1769,243 @@ lib/libnucleus.a
 %%DATADIR%%/jemboss/org/emboss/jemboss/programs/ResultsUpdateTimer.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/programs/RunEmbossApplication.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/programs/RunEmbossApplication2.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossServer.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossFileServer.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossThread.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/server/AppendToLogFileThread.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossAuthServer.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossFileAuthServer.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/server/TestPublicServer.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossFileServer.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossServer.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/server/JembossThread.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/server/TestPrivateServer.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/server/AppendToLogFileThread.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/server/TestPublicServer.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/soap/AuthPopup.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/JembossSoapException.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/soap/CallAjax.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/PendingResults.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/GetWossname.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/PrivateRequest.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/JembossRun.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/ServerSetup.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/FileRoots.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/soap/FileList.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/PublicRequest.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/FileRoots.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/soap/GetACD.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/soap/GetHelp.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/soap/ShowDB.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/GetWossname.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/JembossRun.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/JembossSoapException.java
 %%DATADIR%%/jemboss/org/emboss/jemboss/soap/MakeFileSafe.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/Jemboss.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/JembossLogo.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/JembossParams.java
-%%DATADIR%%/jemboss/org/emboss/jemboss/JembossJarUtil.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/PendingResults.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/PrivateRequest.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/PublicRequest.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/ServerSetup.java
+%%DATADIR%%/jemboss/org/emboss/jemboss/soap/ShowDB.java
+%%DATADIR%%/jemboss/readme.html
+%%DATADIR%%/jemboss/resources/filemgr.html
 %%DATADIR%%/jemboss/resources/jemboss.properties
 %%DATADIR%%/jemboss/resources/readme.html
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-%%DATADIR%%/jemboss/resources/version
-%%DATADIR%%/jemboss/resources/filemgr.html
 %%DATADIR%%/jemboss/resources/seqList.html
+%%DATADIR%%/jemboss/resources/version
+%%DATADIR%%/jemboss/runJemboss.sh
+%%DATADIR%%/jemboss/utils/README
 %%DATADIR%%/jemboss/utils/install-jemboss-server.sh
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-%%DATADIR%%/jemboss/utils/makeJar.csh
-%%DATADIR%%/jemboss/utils/makeJNLP.sh
 %%DATADIR%%/jemboss/utils/makeFileManagerJNLP.sh
+%%DATADIR%%/jemboss/utils/makeJNLP.sh
+%%DATADIR%%/jemboss/utils/makeJar.csh
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-%%DATADIR%%/jemboss/utils/README
-%%DATADIR%%/jemboss/LICENSE
-%%DATADIR%%/jemboss/readme.html
-%%DATADIR%%/jemboss/runJemboss.sh
-%%DATADIR%%/jemboss/README
+%%DATADIR%%/plstnd5.fnt
+%%DATADIR%%/plxtnd5.fnt
+%%DATADIR%%/test/data/aaindex1.test
+%%DATADIR%%/test/data/aligna.dna
+%%DATADIR%%/test/data/aligna.prot
+%%DATADIR%%/test/data/alignapart.dna
+%%DATADIR%%/test/data/alignapart.prot
+%%DATADIR%%/test/data/alignb.dna
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+%%DATADIR%%/test/data/dna.codata
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+%%DATADIR%%/test/data/dna.gcg
+%%DATADIR%%/test/data/dna.gcg8
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+%%DATADIR%%/test/data/dna.m-ncbi
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+%%DATADIR%%/test/data/dna.msf8
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+%%DATADIR%%/test/data/dna.phylip
+%%DATADIR%%/test/data/dna.phylip3
+%%DATADIR%%/test/data/dna.staden
+%%DATADIR%%/test/data/dna.strider
+%%DATADIR%%/test/data/dna.text
+%%DATADIR%%/test/data/feat.emft
+%%DATADIR%%/test/data/feat.fasta
+%%DATADIR%%/test/data/feat.pir
+%%DATADIR%%/test/data/mw1.dat
+%%DATADIR%%/test/data/mw2.dat
+%%DATADIR%%/test/data/mw3.dat
+%%DATADIR%%/test/data/paamir.pep
+%%DATADIR%%/test/data/pax6_cdna.fasta
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+%%DATADIR%%/test/data/site.dat
+%%DATADIR%%/test/data/tranalign.pep
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+%%DATADIR%%/test/data/withrefm
+%%DATADIR%%/test/data/z83307.seq
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+%%DATADIR%%/test/embl/inv.dat
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+%%DATADIR%%/test/embl/rod.dat
+%%DATADIR%%/test/embl/seqvn.hit
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+%%DATADIR%%/test/embl/sts.dat
+%%DATADIR%%/test/embl/taxon.hit
+%%DATADIR%%/test/embl/taxon.trg
+%%DATADIR%%/test/embl/vrl.dat
+%%DATADIR%%/test/embl/vrt.dat
+%%DATADIR%%/test/gb/acnum.hit
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+%%DATADIR%%/test/gb/ba.ref
+%%DATADIR%%/test/gb/ba.seq
+%%DATADIR%%/test/gb/des.hit
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+%%DATADIR%%/test/gb/division.lkp
+%%DATADIR%%/test/gb/entrynam.idx
+%%DATADIR%%/test/gb/htg.ref
+%%DATADIR%%/test/gb/htg.seq
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+%%DATADIR%%/test/gb/seqvn.hit
+%%DATADIR%%/test/gb/seqvn.trg
+%%DATADIR%%/test/gb/taxon.hit
+%%DATADIR%%/test/gb/taxon.trg
+%%DATADIR%%/test/genbank/acnum.hit
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+%%DATADIR%%/test/genbank/division.lkp
+%%DATADIR%%/test/genbank/entrynam.idx
+%%DATADIR%%/test/genbank/gbbct1.seq
+%%DATADIR%%/test/genbank/gbest1.seq
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+%%DATADIR%%/test/genbank/gbpln1.seq
+%%DATADIR%%/test/genbank/gbpln2.seq
+%%DATADIR%%/test/genbank/gbpri1.seq
+%%DATADIR%%/test/genbank/gbrod1.seq
+%%DATADIR%%/test/genbank/gbsts1.seq
+%%DATADIR%%/test/genbank/gbvrl1.seq
+%%DATADIR%%/test/genbank/gbvrt.seq
+%%DATADIR%%/test/genbank/keyword.hit
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+%%DATADIR%%/test/genbank/seqvn.hit
+%%DATADIR%%/test/genbank/seqvn.trg
+%%DATADIR%%/test/genbank/taxon.hit
+%%DATADIR%%/test/genbank/taxon.trg
+%%DATADIR%%/test/pir/acnum.hit
+%%DATADIR%%/test/pir/acnum.trg
+%%DATADIR%%/test/pir/des.hit
+%%DATADIR%%/test/pir/des.trg
+%%DATADIR%%/test/pir/division.lkp
+%%DATADIR%%/test/pir/entrynam.idx
+%%DATADIR%%/test/pir/keyword.hit
+%%DATADIR%%/test/pir/keyword.trg
+%%DATADIR%%/test/pir/pir1.header
+%%DATADIR%%/test/pir/pir1.names
+%%DATADIR%%/test/pir/pir1.numbers
+%%DATADIR%%/test/pir/pir1.offset
+%%DATADIR%%/test/pir/pir1.ref
+%%DATADIR%%/test/pir/pir1.seq
+%%DATADIR%%/test/pir/pir2.header
+%%DATADIR%%/test/pir/pir2.names
+%%DATADIR%%/test/pir/pir2.numbers
+%%DATADIR%%/test/pir/pir2.offset
+%%DATADIR%%/test/pir/pir2.ref
+%%DATADIR%%/test/pir/pir2.seq
+%%DATADIR%%/test/pir/pir3.header
+%%DATADIR%%/test/pir/pir3.names
+%%DATADIR%%/test/pir/pir3.numbers
+%%DATADIR%%/test/pir/pir3.offset
+%%DATADIR%%/test/pir/pir3.ref
+%%DATADIR%%/test/pir/pir3.seq
+%%DATADIR%%/test/pir/pir4.header
+%%DATADIR%%/test/pir/pir4.names
+%%DATADIR%%/test/pir/pir4.numbers
+%%DATADIR%%/test/pir/pir4.offset
+%%DATADIR%%/test/pir/pir4.ref
+%%DATADIR%%/test/pir/pir4.seq
+%%DATADIR%%/test/pir/taxon.hit
+%%DATADIR%%/test/pir/taxon.trg
+%%DATADIR%%/test/swiss/acnum.hit
+%%DATADIR%%/test/swiss/acnum.trg
+%%DATADIR%%/test/swiss/des.hit
+%%DATADIR%%/test/swiss/des.trg
+%%DATADIR%%/test/swiss/division.lkp
+%%DATADIR%%/test/swiss/entrynam.idx
+%%DATADIR%%/test/swiss/keyword.hit
+%%DATADIR%%/test/swiss/keyword.trg
+%%DATADIR%%/test/swiss/seq.dat
+%%DATADIR%%/test/swiss/seqvn.hit
+%%DATADIR%%/test/swiss/seqvn.trg
+%%DATADIR%%/test/swiss/taxon.hit
+%%DATADIR%%/test/swiss/taxon.trg
+%%DATADIR%%/test/swnew/acnum.hit
+%%DATADIR%%/test/swnew/acnum.trg
+%%DATADIR%%/test/swnew/des.hit
+%%DATADIR%%/test/swnew/des.trg
+%%DATADIR%%/test/swnew/division.lkp
+%%DATADIR%%/test/swnew/entrynam.idx
+%%DATADIR%%/test/swnew/keyword.hit
+%%DATADIR%%/test/swnew/keyword.trg
+%%DATADIR%%/test/swnew/new_seq.dat
+%%DATADIR%%/test/swnew/seqvn.hit
+%%DATADIR%%/test/swnew/seqvn.trg
+%%DATADIR%%/test/swnew/taxon.hit
+%%DATADIR%%/test/swnew/taxon.trg
+%%DATADIR%%/test/swnew/upd_ann.dat
+%%DATADIR%%/test/swnew/upd_seq.dat
+%%DATADIR%%/test/wormpep/acnum.hit
+%%DATADIR%%/test/wormpep/acnum.trg
+%%DATADIR%%/test/wormpep/des.hit
+%%DATADIR%%/test/wormpep/des.trg
+%%DATADIR%%/test/wormpep/division.lkp
+%%DATADIR%%/test/wormpep/entrynam.idx
+%%DATADIR%%/test/wormpep/wormpep
 %%PORTDOCS%%@dirrm %%DOCSDIR%%/manuals
 %%PORTDOCS%%@dirrm %%DOCSDIR%%/programs/html
 %%PORTDOCS%%@dirrm %%DOCSDIR%%/programs/text
author	Rong-En Fan <rafan@FreeBSD.org>	2008-04-13 07:21:16 +0000
committer	Rong-En Fan <rafan@FreeBSD.org>	2008-04-13 07:21:16 +0000
commit	a0ab9c0e54e345eab09249760190ec9db7902e12 (patch)
tree	311641ec67e124dbee604c46d678ce44d9c43611 /biology
parent	- Describe better MEMCACHE option (diff)